Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 43 of 207
Found at i:12607802 original size:18 final size:17
Alignment explanation
Indices: 12607779--12607812 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12607769 TGAATAGAAA
12607779 ATGTGTATGATATAATGT
1 ATGTGTATGAT-TAATGT
*
12607797 ATGTGTTTGATTAATG
1 ATGTGTATGATTAATG
12607813 AATTGATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (17 bp):
ATGTGTATGATTAATGT
Found at i:12620187 original size:16 final size:16
Alignment explanation
Indices: 12620166--12620201 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12620156 CTTGAATTTT
*
12620166 AAAATTTTAAAATAAA
1 AAAATTATAAAATAAA
*
12620182 AAAATTATGAAATAAA
1 AAAATTATAAAATAAA
12620198 AAAA
1 AAAA
12620202 ATAAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAATTATAAAATAAA
Found at i:12628562 original size:17 final size:17
Alignment explanation
Indices: 12628540--12628577 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12628530 CAATTAAGTT
* *
12628540 AATTTTAAAGTTTTTAA
1 AATTTTAAAATATTTAA
12628557 AATTTTAAAATATTTAA
1 AATTTTAAAATATTTAA
12628574 AATT
1 AATT
12628578 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AATTTTAAAATATTTAA
Found at i:12629715 original size:24 final size:24
Alignment explanation
Indices: 12629688--12629737 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
12629678 GACGAATACA
*
12629688 AAGACAATGGTGGAA-ATGAAGATG
1 AAGACAATGGT-CAAGATGAAGATG
*
12629712 AAGACGATGGTCAAGATGAAGATG
1 AAGACAATGGTCAAGATGAAGATG
12629736 AA
1 AA
12629738 TATGGGGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.46, C:0.06, G:0.32, T:0.16
Consensus pattern (24 bp):
AAGACAATGGTCAAGATGAAGATG
Found at i:12635283 original size:38 final size:39
Alignment explanation
Indices: 12635183--12635299 Score: 200
Period size: 39 Copynumber: 3.0 Consensus size: 39
12635173 ACCCAACCCA
* *
12635183 ACCCAATTACCCAACGCAATAAAACTAAAAATAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
12635222 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
*
12635261 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
12635299 A
1 A
12635300 ACTCTTAAGT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 29 0.39
39 46 0.61
ACGTcount: A:0.51, C:0.27, G:0.03, T:0.18
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:12635524 original size:9 final size:9
Alignment explanation
Indices: 12635503--12635553 Score: 68
Period size: 9 Copynumber: 5.7 Consensus size: 9
12635493 TCAATTCGGG
12635503 TAATTTAGG-
1 TAATTT-GGT
12635512 TAATTTGGT
1 TAATTTGGT
*
12635521 TAATTCGGT
1 TAATTTGGT
12635530 TAATTTGGT
1 TAATTTGGT
*
12635539 TAATTCGGT
1 TAATTTGGT
12635548 TAATTT
1 TAATTT
12635554 TTAACCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
8 2 0.05
9 35 0.95
ACGTcount: A:0.25, C:0.04, G:0.20, T:0.51
Consensus pattern (9 bp):
TAATTTGGT
Found at i:12635526 original size:27 final size:27
Alignment explanation
Indices: 12635495--12635552 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
12635485 GTAGTGATTC
*
12635495 AATTCGGGTAATTTAGG-TAATTTGGTT
1 AATTCGGGTAATTT-GGTTAATTCGGTT
*
12635522 AATTCGGTTAATTTGGTTAATTCGGTT
1 AATTCGGGTAATTTGGTTAATTCGGTT
12635549 AATT
1 AATT
12635553 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.26, C:0.05, G:0.22, T:0.47
Consensus pattern (27 bp):
AATTCGGGTAATTTGGTTAATTCGGTT
Found at i:12637985 original size:33 final size:33
Alignment explanation
Indices: 12637948--12638010 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
12637938 ACTATCCCGA
* *
12637948 TGAACTTTATCTGTTCTGTGTTTATTGTCCCAG
1 TGAACTATATATGTTCTGTGTTTATTGTCCCAG
*
12637981 TGAACTATCTATGTTCTGTGTTTATTGTCC
1 TGAACTATATATGTTCTGTGTTTATTGTCC
12638011 TAACAGACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.16, C:0.17, G:0.17, T:0.49
Consensus pattern (33 bp):
TGAACTATATATGTTCTGTGTTTATTGTCCCAG
Found at i:12638021 original size:33 final size:33
Alignment explanation
Indices: 12637959--12638037 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
12637949 GAACTTTATC
* **
12637959 TGTTCTGTGTTTATTGTCCCAGTGAACTATCTA
1 TGTTCTGTGTTTATTGTCCAACAGAACTATCTA
* *
12637992 TGTTCTGTGTTTATTGTCCTAACAG-ACTATTTC
1 TGTTCTGTGTTTATTGTCC-AACAGAACTATCTA
*
12638025 TGTTATGTGTTTA
1 TGTTCTGTGTTTA
12638038 CTATCCAGCG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 37 0.95
34 2 0.05
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (33 bp):
TGTTCTGTGTTTATTGTCCAACAGAACTATCTA
Found at i:12639378 original size:38 final size:37
Alignment explanation
Indices: 12639336--12639409 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 37
12639326 ATATAATTAC
*
12639336 TTTAATATTAAATTAATA-AAATACTATTAAGATAAATA
1 TTTAAT-TTAAATTAATATAAATA-TATTAAAATAAATA
*
12639374 TTTAATTTAATTTAATATTAAATATATTAAAATAAA
1 TTTAATTTAAATTAATA-TAAATATATTAAAATAAA
12639410 ATTATTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 10 0.31
38 17 0.53
39 5 0.16
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (37 bp):
TTTAATTTAAATTAATATAAATATATTAAAATAAATA
Found at i:12644386 original size:43 final size:43
Alignment explanation
Indices: 12644293--12644387 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
12644283 ACATAGTTAG
** * * *
12644293 CCCATTGATGAATACTATACACAAGTAAACTTTGTACAATTCG
1 CCCATTGGCGAATACTATACACAAGCAAACTTTATACAATTCA
**
12644336 CCCATTGGCGAATACTATACACAAGCAGTCTTTATACAATTCA
1 CCCATTGGCGAATACTATACACAAGCAAACTTTATACAATTCA
12644379 CCCATTGGC
1 CCCATTGGC
12644388 AAAATACCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
CCCATTGGCGAATACTATACACAAGCAAACTTTATACAATTCA
Found at i:12645606 original size:20 final size:20
Alignment explanation
Indices: 12645582--12645681 Score: 65
Period size: 20 Copynumber: 5.0 Consensus size: 20
12645572 AAGTACTTGT
* *
12645582 AGTTTATCTGCAATACTGGT
1 AGTTTATCTACAATACTGGC
* * * * *
12645602 GGTTTGTCCATAATACTAGC
1 AGTTTATCTACAATACTGGC
* ** *
12645622 ATTTTATCTGTAATACTGGT
1 AGTTTATCTACAATACTGGC
* * * *
12645642 GGCTTGTCCACAATACTGGC
1 AGTTTATCTACAATACTGGC
12645662 AGTTTATCTACAATACTGGC
1 AGTTTATCTACAATACTGGC
12645682 GACTTGTCCA
Statistics
Matches: 54, Mismatches: 26, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (20 bp):
AGTTTATCTACAATACTGGC
Found at i:12645639 original size:40 final size:40
Alignment explanation
Indices: 12645582--12645712 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
12645572 AAGTACTTGT
*
12645582 AGTTTATCTGCAATACTGGTGGTTTGTCCATAATACTAGC
1 AGTTTATCTGCAATACTGGTGGCTTGTCCATAATACTAGC
* * * *
12645622 ATTTTATCTGTAATACTGGTGGCTTGTCCACAATACTGGC
1 AGTTTATCTGCAATACTGGTGGCTTGTCCATAATACTAGC
* * * *
12645662 AGTTTATCTACAATACTGGCGACTTGTCCATAATACT-GAT
1 AGTTTATCTGCAATACTGGTGGCTTGTCCATAATACTAG-C
12645702 AGTTTATCTGC
1 AGTTTATCTGC
12645713 GATTACCAGG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 76 0.99
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (40 bp):
AGTTTATCTGCAATACTGGTGGCTTGTCCATAATACTAGC
Found at i:12645696 original size:20 final size:20
Alignment explanation
Indices: 12645633--12645699 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
12645623 TTTTATCTGT
* *
12645633 AATACTGGTGGCTTGTCCAC
1 AATACTGGCGACTTGTCCAC
* * *
12645653 AATACTGGC-AGTTTATCTAC
1 AATACTGGCGA-CTTGTCCAC
*
12645673 AATACTGGCGACTTGTCCAT
1 AATACTGGCGACTTGTCCAC
12645693 AATACTG
1 AATACTG
12645700 ATAGTTTATC
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AATACTGGCGACTTGTCCAC
Found at i:12651561 original size:7 final size:7
Alignment explanation
Indices: 12651551--12651604 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
12651541 ACCCTAAAGT
12651551 TTGAACC
1 TTGAACC
12651558 TTGAACC
1 TTGAACC
**
12651565 -CAAACC
1 TTGAACC
*
12651571 -CGAACC
1 TTGAACC
12651577 -TGAACC
1 TTGAACC
*
12651583 TTGAATC
1 TTGAACC
12651590 TTGAACC
1 TTGAACC
12651597 TTGAACC
1 TTGAACC
12651604 T
1 T
12651605 AGGGTTCGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
6 14 0.35
7 26 0.65
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.24
Consensus pattern (7 bp):
TTGAACC
Found at i:12662173 original size:24 final size:24
Alignment explanation
Indices: 12662139--12662190 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
12662129 TTTTTAGAAG
* * *
12662139 ATTTAGTATTTATGAGTATAATGT
1 ATTTAGCATTTATGAGCATAATAT
*
12662163 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
12662187 ATTT
1 ATTT
12662191 GACTTTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:12666886 original size:19 final size:19
Alignment explanation
Indices: 12666851--12666891 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
12666841 AATCCAGCAG
12666851 ACCCAAACAACACCCAA-A
1 ACCCAAACAACACCCAATA
*
12666869 ACCCAAACAAAGACCCAATA
1 ACCCAAAC-AACACCCAATA
12666889 ACC
1 ACC
12666892 TAGCCCGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.54, C:0.41, G:0.02, T:0.02
Consensus pattern (19 bp):
ACCCAAACAACACCCAATA
Found at i:12668059 original size:3 final size:3
Alignment explanation
Indices: 12668049--12668103 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
12668039 AAAATAATAA
* * * *
12668049 ATT A-T ATT ATT ATT AGT ATT ATT ATT AAT ATT AAT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12668096 ATT ATT AT
1 ATT ATT AT
12668104 ATTTTCATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:12668208 original size:20 final size:21
Alignment explanation
Indices: 12668183--12668224 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
12668173 TTGTTATATG
12668183 TATATACATACATACAT-TTT
1 TATATACATACATACATATTT
* *
12668203 TATATATATACGTACATATTT
1 TATATACATACATACATATTT
12668224 T
1 T
12668225 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (21 bp):
TATATACATACATACATATTT
Found at i:12669319 original size:173 final size:173
Alignment explanation
Indices: 12669067--12669419 Score: 636
Period size: 173 Copynumber: 2.0 Consensus size: 173
12669057 ATTCTTCAAA
*
12669067 GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTATGAG
1 GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTACGAG
*
12669132 GGTGTTAATCCTTCCTCGTACGTAACCGACTCCCGAACTCGTTTTCTGAATTTTATGGACCAAAA
66 GGTGCTAATCCTTCCTCGTACGTAACCGACTCCCGAACTCGTTTTCTGAATTTTATGGACCAAAA
* *
12669197 TCGTTGTTTTAATAAAATCAAATCGTTTATTAAAAATAACCAC
131 TCGTTGTTTTAATAAAATCAAATCATTTATTAAAAACAACCAC
*
12669240 GTTTTCAATTTTCGACATCAAGACATTAGCTAATTAACTAGGTACCAATTTTTGGGCGTTACGAG
1 GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTACGAG
* *
12669305 GGTGCTAATCCTTCCTCGTACGTAATCGACTCCCGAACTCGTTTTCTGAATTTTGTGGACCAAAA
66 GGTGCTAATCCTTCCTCGTACGTAACCGACTCCCGAACTCGTTTTCTGAATTTTATGGACCAAAA
12669370 TCGTTGTTTTAATAAAATCAAATCATTTATTAAAAACAACCAC
131 TCGTTGTTTTAATAAAATCAAATCATTTATTAAAAACAACCAC
12669413 -TTTTCAA
1 GTTTTCAA
12669420 GGTGATCTGA
Statistics
Matches: 173, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
172 7 0.04
173 166 0.96
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (173 bp):
GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTACGAG
GGTGCTAATCCTTCCTCGTACGTAACCGACTCCCGAACTCGTTTTCTGAATTTTATGGACCAAAA
TCGTTGTTTTAATAAAATCAAATCATTTATTAAAAACAACCAC
Found at i:12678829 original size:18 final size:18
Alignment explanation
Indices: 12678785--12678829 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
12678775 TTGAACAAAA
12678785 TGACAAGATATCGTATTGG
1 TGACAAGATATCG-ATTGG
12678804 TGACAAGATATC-ATTGAG
1 TGACAAGATATCGATTG-G
*
12678822 TGATAAGA
1 TGACAAGA
12678830 AGAGAAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 8 0.33
19 12 0.50
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (18 bp):
TGACAAGATATCGATTGG
Found at i:12679367 original size:45 final size:45
Alignment explanation
Indices: 12679318--12679417 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
12679308 ATAGATCAAT
* * ** *
12679318 GAAGATATCAGATTTTGTTTTCCTGTACTGACAGCGAAGCAGATC
1 GAAGATACCAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATC
* *
12679363 GAAGACACCAGATCTTGCCTTCCTGTACTGATAGCAAAGCAGATC
1 GAAGATACCAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATC
12679408 GAAGATACCA
1 GAAGATACCA
12679418 TAGTTTGCAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (45 bp):
GAAGATACCAGATCTTGCCTTCCTGTACTGACAGCAAAGCAGATC
Found at i:12679606 original size:99 final size:98
Alignment explanation
Indices: 12679435--12679961 Score: 676
Period size: 99 Copynumber: 5.3 Consensus size: 98
12679425 CAGCAGAGTG
* * * *
12679435 GATTGAGGCCACAATGGCGAATCTTACTTCCTTAGCGGTGCAGTGGAACAGATTGAAGCTACATC
1 GATTGAGGCCACAACGACGAATCTTACTTCC-TGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
*
12679500 GGCGAATCTCGCTTCCCCGACATTGCAATTAAAA
65 GGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * * *
12679534 GATTGAGGCTACAACGGCGAATCTTATTTCCCTTGCGGTGCAGTGGAATAGATTGAAGCTACAAT
1 GATTGAGGCCACAACGACGAATCTTACTT-CCTGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
*
12679599 GACGAATCTTGCTTCCCCGACATTGCAATTAAAA
65 GGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * *
12679633 GATCGAGGCCACAATGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAAC
1 GATTGAGGCCACAACGACGAATCTTACTT-CCTGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
*
12679698 AGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
65 GGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
** * * * *
12679732 GATCAAGGCCCCAACGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAACAGATTGAAGCCACAAC
1 GATTGAGGCCACAACGACGAATCTTAC-TTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* *
12679797 GGCAAATCTTGCTTCCTCGACATTGCAATTAAAA
65 GGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * * * *
12679831 GATTGAGGCCACAACAACGAATCTTAATTTTCTGGTGGTGCAATGGAACAGATTGAAGCTACAGC
1 GATTGAGGCCACAACGACGAATCTT-ACTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAAC
* * *
12679896 GGTGAATCTTGCTTCCCTGACATTGTAATTAAATA
65 GGCGAATCTTGCTTCCCCGACATTGCAATTAAA-A
* * *
12679931 GATTGAAGCTACAACAACGAATCTTACTTCC
1 GATTGAGGCCACAACGACGAATCTTACTTCC
12679962 CTGGTGAATA
Statistics
Matches: 375, Mismatches: 49, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
99 346 0.92
100 29 0.08
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (98 bp):
GATTGAGGCCACAACGACGAATCTTACTTCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACG
GCGAATCTTGCTTCCCCGACATTGCAATTAAAA
Found at i:12679953 original size:50 final size:49
Alignment explanation
Indices: 12679484--12679964 Score: 302
Period size: 50 Copynumber: 9.7 Consensus size: 49
12679474 GCAGTGGAAC
* ** *
12679484 AGATTGAAGCTACATCGGCGAATCTCGCTTCCCCGACATTGCAATTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
* * ** * * *
12679533 AGATTGAGGCTACAACGGCGAATCTTATTTCCCTTG-CGGTGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCC-TGACATTGCAAT-TAAA
* * * *
12679583 AGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
* * * * * * ** * * * *
12679632 AGATCGAGGCCACAATGACGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAAT-TAAA
* * *
12679682 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAATTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
* ** ** * ** * * *
12679731 AGA-TCAAGGCCCCAACGGCGAATCTTACTTTTCTGGCGGTGCAGTGGAAC
1 AGATTGAA-GCTACAACGGCGAATCTTACTTCCCTGACATTGCAAT-TAAA
* * *
12679781 AGATTGAAGCCACAACGGCAAATCTTGCTT-CCTCGACATTGCAATTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCT-GACATTGCAATTAAA
* * ** * ** **** * *
12679830 AGATTGAGGCCACAACAACGAATCTTAATTTTCTGGTGGTGCAATGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAAT-TAAA
* * * *
12679880 AGATTGAAGCTACAGCGGTGAATCTTGCTTCCCTGACATTGTAATTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
**
12679929 TAGATTGAAGCTACAACAACGAATCTTACTTCCCTG
1 -AGATTGAAGCTACAACGGCGAATCTTACTTCCCTG
12679965 GTGAATAGAT
Statistics
Matches: 312, Mismatches: 109, Indels: 21
0.71 0.25 0.05
Matches are distributed among these distances:
48 3 0.01
49 140 0.45
50 166 0.53
51 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (49 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCTGACATTGCAATTAAA
Found at i:12681674 original size:3 final size:3
Alignment explanation
Indices: 12681663--12681710 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
12681653 TAATAAATTG
* * * *
12681663 TAT TGT TAT TAT TAG TAT TAT TAT TAA TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12681711 ATTTTCATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:12681817 original size:24 final size:24
Alignment explanation
Indices: 12681783--12681830 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12681773 TCAAATTTTG
*
12681783 TTATATGTATATACATACATACAT
1 TTATATATATATACATACATACAT
* *
12681807 TTATATATATATATATACGTACAT
1 TTATATATATATACATACATACAT
12681831 ATTTTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (24 bp):
TTATATATATATACATACATACAT
Found at i:12682931 original size:173 final size:173
Alignment explanation
Indices: 12682679--12683031 Score: 627
Period size: 173 Copynumber: 2.0 Consensus size: 173
12682669 ATTCTTCAAA
*
12682679 GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTATGAG
1 GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTACGAG
* *
12682744 GGTGTTAATCCTTCCTCGTACGTAACCGACTCCCGAACTCGTTTTCTGAATTTTATGGACCAAAA
66 GGTGCTAATCCTTCCTCATACGTAACCGACTCCCGAACTCGTTTTCTGAATTTTATGGACCAAAA
*
12682809 TCGTTGTTTTAATAAAATCAAATCGTTTATTAAAAATAACCAC
131 TCGTTGTTTTAATAAAATCAAATCGTTTATTAAAAACAACCAC
* *
12682852 GTTTTCAATTTTCGACATCAAGATATTAGCTAATTAACTAGGTACCAATTTTTGGGCGTTACGAG
1 GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTACGAG
*
12682917 GGTGCTAATCCTTCCTCATACGTAACCGACTCCCGAACTCGTTTTCTGAATTTTGTGGACCAAAA
66 GGTGCTAATCCTTCCTCATACGTAACCGACTCCCGAACTCGTTTTCTGAATTTTATGGACCAAAA
*
12682982 TTGTTGTTTTAATAAAATCAAATCGTTTATTAAAAACAACCAC
131 TCGTTGTTTTAATAAAATCAAATCGTTTATTAAAAACAACCAC
12683025 -TTTTCAA
1 GTTTTCAA
12683032 GGTGATATGA
Statistics
Matches: 172, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
172 7 0.04
173 165 0.96
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (173 bp):
GTTTTCAATTTTCGACATCAAGACATTAGCTAATCAACTAGGTACCAATTTTTGGGCGTTACGAG
GGTGCTAATCCTTCCTCATACGTAACCGACTCCCGAACTCGTTTTCTGAATTTTATGGACCAAAA
TCGTTGTTTTAATAAAATCAAATCGTTTATTAAAAACAACCAC
Found at i:12683505 original size:15 final size:15
Alignment explanation
Indices: 12683485--12683514 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12683475 GGTAAAAAAA
*
12683485 GGGGTGGGGGTGGGT
1 GGGGTGGGGGGGGGT
12683500 GGGGTGGGGGGGGGT
1 GGGGTGGGGGGGGGT
12683515 AATGGGTCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.83, T:0.17
Consensus pattern (15 bp):
GGGGTGGGGGGGGGT
Found at i:12684896 original size:168 final size:168
Alignment explanation
Indices: 12684618--12684943 Score: 652
Period size: 168 Copynumber: 1.9 Consensus size: 168
12684608 GACTTCCCCC
12684618 TTTGATTATTAATGTTATTAATTAGTCTAAATAATTAATAATATTTATTTTTTGATTAAAAAATT
1 TTTGATTATTAATGTTATTAATTAGTCTAAATAATTAATAATATTTATTTTTTGATTAAAAAATT
12684683 ACATAATTATATATAATTTGAATACCTTAATAGTCTTAAAAGAGCCTTCGTATTCTTTTTTTACA
66 ACATAATTATATATAATTTGAATACCTTAATAGTCTTAAAAGAGCCTTCGTATTCTTTTTTTACA
12684748 TTATAAGATAACGTCATTTCAATTTTGATCTAACATAA
131 TTATAAGATAACGTCATTTCAATTTTGATCTAACATAA
12684786 TTTGATTATTAATGTTATTAATTAGTCTAAATAATTAATAATATTTATTTTTTGATTAAAAAATT
1 TTTGATTATTAATGTTATTAATTAGTCTAAATAATTAATAATATTTATTTTTTGATTAAAAAATT
12684851 ACATAATTATATATAATTTGAATACCTTAATAGTCTTAAAAGAGCCTTCGTATTCTTTTTTTACA
66 ACATAATTATATATAATTTGAATACCTTAATAGTCTTAAAAGAGCCTTCGTATTCTTTTTTTACA
12684916 TTATAAGATAACGTCATTTCAATTTTGA
131 TTATAAGATAACGTCATTTCAATTTTGA
12684944 CACCTAGACT
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 158 1.00
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (168 bp):
TTTGATTATTAATGTTATTAATTAGTCTAAATAATTAATAATATTTATTTTTTGATTAAAAAATT
ACATAATTATATATAATTTGAATACCTTAATAGTCTTAAAAGAGCCTTCGTATTCTTTTTTTACA
TTATAAGATAACGTCATTTCAATTTTGATCTAACATAA
Found at i:12685558 original size:24 final size:24
Alignment explanation
Indices: 12685507--12685558 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
12685497 AATTGAGTTT
* * *
12685507 CTTTTCCTAGTTAAACTCTACTAT
1 CTTTTCCTAGTCAAACTCTAATAA
*
12685531 CTTTTCCTAGTCGAACTCTAATAA
1 CTTTTCCTAGTCAAACTCTAATAA
12685555 CTTT
1 CTTT
12685559 AGGGATATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (24 bp):
CTTTTCCTAGTCAAACTCTAATAA
Found at i:12699245 original size:13 final size:13
Alignment explanation
Indices: 12699227--12699251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12699217 TTTAGTATTG
12699227 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
12699240 CTTTTAAAAAGT
1 CTTTTAAAAAGT
12699252 GTTAGTGGAA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
CTTTTAAAAAGTA
Found at i:12700135 original size:14 final size:14
Alignment explanation
Indices: 12700113--12700149 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12700103 TTAGGTATAT
* *
12700113 TTTACTATATCTTA
1 TTTATTATATCATA
12700127 TTTATTATATCATA
1 TTTATTATATCATA
12700141 TTTATTATA
1 TTTATTATA
12700150 ATTGAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTATTATATCATA
Found at i:12706360 original size:18 final size:18
Alignment explanation
Indices: 12706339--12706380 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
12706329 GAAATAATCT
*
12706339 TTTATA-ATTTTTAATAAA
1 TTTATATATATTTAA-AAA
12706357 TTTATATATATTTAAAAA
1 TTTATATATATTTAAAAA
12706375 TATTAT
1 T-TTAT
12706381 TTATTAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTATATATATTTAAAAA
Found at i:12706715 original size:27 final size:26
Alignment explanation
Indices: 12706685--12706748 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 26
12706675 TTTATCGAGG
12706685 TTATTAATTTATCGATAAATAAATATT
1 TTATTAATTTATCGATAAATAAATA-T
* *
12706712 TTATTACTTTATCGATAAATTAATAT
1 TTATTAATTTATCGATAAATAAATAT
12706738 TTATTAATTTA
1 TTATTAATTTA
12706749 GAGAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATAAATAT
Found at i:12722330 original size:18 final size:18
Alignment explanation
Indices: 12722294--12722332 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12722284 GAAATATTTA
*
12722294 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
12722312 TTTTGATGTATTATA-TAT
1 TTTTGATGT-TTATAGTAT
12722330 TTT
1 TTT
12722333 AAAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:12724965 original size:13 final size:13
Alignment explanation
Indices: 12724947--12724974 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12724937 TTTTGCCACC
12724947 AAAAATTTGCAAT
1 AAAAATTTGCAAT
12724960 AAAAATTTGCAAT
1 AAAAATTTGCAAT
12724973 AA
1 AA
12724975 TACCCTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAAATTTGCAAT
Found at i:12725483 original size:13 final size:13
Alignment explanation
Indices: 12725465--12725491 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12725455 TGCATACTTA
12725465 ATTTCATAAGGCT
1 ATTTCATAAGGCT
12725478 ATTTCATAAGGCT
1 ATTTCATAAGGCT
12725491 A
1 A
12725492 GAGAGACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTTCATAAGGCT
Found at i:12730094 original size:30 final size:30
Alignment explanation
Indices: 12730060--12730120 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
12730050 TTAGAGGCCG
12730060 AGAGTGGTGGGGTGCTAGTATCTTTAGATA
1 AGAGTGGTGGGGTGCTAGTATCTTTAGATA
12730090 AGAGTGGTGGGGTGCTAGTATCTTTAGATA
1 AGAGTGGTGGGGTGCTAGTATCTTTAGATA
12730120 A
1 A
12730121 AACTACTAAA
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:0.25, C:0.07, G:0.36, T:0.33
Consensus pattern (30 bp):
AGAGTGGTGGGGTGCTAGTATCTTTAGATA
Found at i:12731030 original size:43 final size:40
Alignment explanation
Indices: 12730965--12731075 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 40
12730955 AGCTCGTACA
* *
12730965 ATGCCATATCCCGGATATGGTCTTACATGTTAACGCATAT-CG
1 ATGCCATATCCCAGACATGGTCTTACATG--AA-GCATATACG
* * *
12731007 ATGCCACTATCCCAGACAGGGTCTTATATGAATCATATACG
1 ATGCCA-TATCCCAGACATGGTCTTACATGAAGCATATACG
*
12731048 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCC-ATATCCCAGACATGGTCTTACA
12731076 CGTTTTCTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
40 5 0.09
41 27 0.47
42 7 0.12
43 19 0.33
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (40 bp):
ATGCCATATCCCAGACATGGTCTTACATGAAGCATATACG
Found at i:12731304 original size:30 final size:30
Alignment explanation
Indices: 12731243--12731585 Score: 490
Period size: 30 Copynumber: 11.4 Consensus size: 30
12731233 ATCCAATGCT
* * *
12731243 CAAATCAATTCGACAATATATATATACATATA
1 CAAATCAATTCGGC-A-ATGTATATCCATATA
*
12731275 CAAATCAATTCGGCAATGTATATCTATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
*
12731305 CAAATCAATTCGGTAATGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
12731335 CAAATCAATTCGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
* *
12731365 CAAATCAATTCGGCAACGTATATCTATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
* *
12731395 AAAATCAATTCGGCAACGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
** *
12731425 CAAAAAAATTCAGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
12731455 CAAATCAATTCGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
* *
12731485 CAAAACAATTCGACAATGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
* *
12731515 CAAATCAATTCGACAATGTAAATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
* * *
12731545 CAAATCAATTCGACAATGTATACCCATACA
1 CAAATCAATTCGGCAATGTATATCCATATA
12731575 C-AATCAATTCG
1 CAAATCAATTCG
12731586 AAAATATATA
Statistics
Matches: 285, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
29 10 0.04
30 261 0.92
31 1 0.00
32 13 0.05
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (30 bp):
CAAATCAATTCGGCAATGTATATCCATATA
Found at i:12740956 original size:54 final size:54
Alignment explanation
Indices: 12740893--12741014 Score: 210
Period size: 54 Copynumber: 2.3 Consensus size: 54
12740883 ATAAGTATTT
*
12740893 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAA-TTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATATTAGTTAATT-AAGTTCATCTTAGTTAATTA
*
12740947 AGTTGCTGGAATAAATTACTCATATTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCATATTAGTTAATTAAGTTCATCTTAGTTAATTA
12741001 AGTTGCTGGAATAA
1 AGTTGCTGGAATAA
12741015 TTTATTGTTG
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 2 0.03
54 63 0.97
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.42
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATATTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:12740993 original size:19 final size:19
Alignment explanation
Indices: 12740966--12741004 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
12740956 AATAAATTAC
12740966 TCATATTAGTTAATTAAGT
1 TCATATTAGTTAATTAAGT
* *
12740985 TCATCTTAGTTAATTTAGT
1 TCATATTAGTTAATTAAGT
12741004 T
1 T
12741005 GCTGGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (19 bp):
TCATATTAGTTAATTAAGT
Found at i:12741364 original size:41 final size:41
Alignment explanation
Indices: 12741319--12741402 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
12741309 TTTCCTAAAC
12741319 TTTTTGGCTGCTCAAGAATGAAACCTAAGCATTCAAGCTCA
1 TTTTTGGCTGCTCAAGAATGAAACCTAAGCATTCAAGCTCA
12741360 TTTTTGGCTGCTCAAGAATGAAACCTAAGCATTCAAGCTCA
1 TTTTTGGCTGCTCAAGAATGAAACCTAAGCATTCAAGCTCA
12741401 TT
1 TT
12741403 AAATCAGCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (41 bp):
TTTTTGGCTGCTCAAGAATGAAACCTAAGCATTCAAGCTCA
Found at i:12748317 original size:9 final size:9
Alignment explanation
Indices: 12748303--12748330 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12748293 TATAGTTTGA
12748303 TATTCGAAT
1 TATTCGAAT
12748312 TATTCGAAT
1 TATTCGAAT
12748321 TATTCGAAT
1 TATTCGAAT
12748330 T
1 T
12748331 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12749625 original size:68 final size:68
Alignment explanation
Indices: 12749516--12749642 Score: 236
Period size: 68 Copynumber: 1.9 Consensus size: 68
12749506 ACACTTAAAT
* *
12749516 TAACTTTGAGTTGTCCTGAAAACATATTCAAATGGCTGGTCAGACAAGACAAAAATATGGTGTCC
1 TAACTTTGAGTTGTCCTGAAAACATATCCAAATGCCTGGTCAGACAAGACAAAAATATGGTGTCC
12749581 AAC
66 AAC
12749584 TAACTTTGAGTTGTCCTGAAAACATATCCAAATGCCTGGTCAGACAAGACAAAAATATG
1 TAACTTTGAGTTGTCCTGAAAACATATCCAAATGCCTGGTCAGACAAGACAAAAATATG
12749643 TCAACACATA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (68 bp):
TAACTTTGAGTTGTCCTGAAAACATATCCAAATGCCTGGTCAGACAAGACAAAAATATGGTGTCC
AAC
Found at i:12752217 original size:14 final size:14
Alignment explanation
Indices: 12752191--12752220 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
12752181 ATATTCAGCG
12752191 AAGGGAAGAAAAAT
1 AAGGGAAGAAAAAT
12752205 AAGGAGAAGAAAAAT
1 AAGG-GAAGAAAAAT
12752220 A
1 A
12752221 TTTCTTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (14 bp):
AAGGGAAGAAAAAT
Found at i:12757646 original size:13 final size:13
Alignment explanation
Indices: 12757628--12757659 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
12757618 TCTAAATTCA
12757628 TTGATTGAAAATC
1 TTGATTGAAAATC
12757641 TTGATTGAAAATC
1 TTGATTGAAAATC
12757654 TTGATT
1 TTGATT
12757660 TAAGAAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (13 bp):
TTGATTGAAAATC
Found at i:12762117 original size:23 final size:23
Alignment explanation
Indices: 12762091--12762137 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12762081 TAAACTACGC
* *
12762091 TTACAACTGAAAAGAAACCTAAA
1 TTACAACTAAAAAGAAAACTAAA
* *
12762114 TTACAAGTAAAAATAAAACTAAA
1 TTACAACTAAAAAGAAAACTAAA
12762137 T
1 T
12762138 AGAAAACGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.60, C:0.13, G:0.06, T:0.21
Consensus pattern (23 bp):
TTACAACTAAAAAGAAAACTAAA
Found at i:12766196 original size:90 final size:90
Alignment explanation
Indices: 12766066--12766233 Score: 205
Period size: 90 Copynumber: 1.9 Consensus size: 90
12766056 GTGTGAACTG
** * *
12766066 TCCATTTATGCAGGTAAAAGTTGCTAATACATTGTAGATGAAACACTGGTCGAGCAGAT-GACTG
1 TCCATTTATGCAAATAAAAGCTGCTAATACATTGTAGATGAAACACTAGTCGAGCAGATAG-CTG
*
12766130 TCGACTAAAATATGGTGAATGAACCA
65 CCGACTAAAATATGGTGAATGAACCA
* * * * * *
12766156 TCCATTTGTGCAAATAAAAGCTGCTAATAC-GTGTTGGATGAACCACTAGTCGAGTAGATAGTTG
1 TCCATTTATGCAAATAAAAGCTGCTAATACATTG-TAGATGAAACACTAGTCGAGCAGATAGCTG
12766220 CCGACTAAAATATG
65 CCGACTAAAATATG
12766234 TTGTGGATAA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
89 2 0.03
90 62 0.95
91 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (90 bp):
TCCATTTATGCAAATAAAAGCTGCTAATACATTGTAGATGAAACACTAGTCGAGCAGATAGCTGC
CGACTAAAATATGGTGAATGAACCA
Found at i:12766256 original size:47 final size:47
Alignment explanation
Indices: 12766181--12766294 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
12766171 AAAAGCTGCT
* * * *
12766181 AATACG-TGTTGGATGAACCACTAGTCGAGTAGAT-AGTTGCCGACTAA
1 AATACGTTG-TGGATAAACCACTAATCGAGCAGATGA-TTGCAGACTAA
* * *
12766228 AATATGTTGTGGATAAATCACTAATCGAGCAGATGATTGGAGACTAA
1 AATACGTTGTGGATAAACCACTAATCGAGCAGATGATTGCAGACTAA
*
12766275 AATACGTTGTGGATACACCA
1 AATACGTTGTGGATAAACCA
12766295 TTGGTCGAGT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
47 52 0.95
48 3 0.05
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (47 bp):
AATACGTTGTGGATAAACCACTAATCGAGCAGATGATTGCAGACTAA
Found at i:12767498 original size:17 final size:16
Alignment explanation
Indices: 12767455--12767501 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
12767445 TTTGATGTAA
12767455 GAGAGGAAAGAAAAGG
1 GAGAGGAAAGAAAAGG
*
12767471 AAGA-GAGAAGAAATAGG
1 GAGAGGA-AAGAAA-AGG
12767488 GAGAGGAAAGAAAA
1 GAGAGGAAAGAAAA
12767502 TTCTAATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 2 0.08
16 10 0.38
17 12 0.46
18 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (16 bp):
GAGAGGAAAGAAAAGG
Found at i:12773124 original size:22 final size:22
Alignment explanation
Indices: 12773096--12773137 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12773086 TTGGCAAGCC
*
12773096 TATAAGGCTGAGCTTCACCATG
1 TATAAGGCTAAGCTTCACCATG
*
12773118 TATAAGGTTAAGCTTCACCA
1 TATAAGGCTAAGCTTCACCA
12773138 AGTTTATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (22 bp):
TATAAGGCTAAGCTTCACCATG
Found at i:12775092 original size:11 final size:11
Alignment explanation
Indices: 12775017--12775092 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
12775007 TATTCCAAAA
*
12775017 TAATATTATTT
1 TAATATTAATT
12775028 TAATAGTTTAATAT
1 TAATA--TTAAT-T
12775042 TAA-ATTAAATT
1 TAATATT-AATT
*
12775053 TAATATTTATCT
1 TAATATTAAT-T
*
12775065 TAATAGT-ATT
1 TAATATTAATT
12775075 T--TATTAATT
1 TAATATTAATT
12775084 TAATATTAA
1 TAATATTAA
12775093 AGTGATTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 13 0.25
13 5 0.10
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:12784351 original size:45 final size:45
Alignment explanation
Indices: 12784287--12784374 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
12784277 TCAGATACTC
* * *
12784287 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCA
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTCA
12784332 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGT
12784375 TCGGTTCACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTCA
Found at i:12784443 original size:51 final size:51
Alignment explanation
Indices: 12784385--12784571 Score: 207
Period size: 51 Copynumber: 3.7 Consensus size: 51
12784375 TCGGTTCACA
*
12784385 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGATACACG
* ** * * * *
12784436 TAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGATACACG
* * * * * * *
12784487 TAGTAGCCTACACATTGTACTACACATGCGACC--TATCATTCTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGA-TACACG
*
12784537 TAGTAGCCTGAACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
12784572 CACTTTCACT
Statistics
Matches: 107, Mismatches: 26, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
49 4 0.04
50 32 0.30
51 71 0.66
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGATACACG
Found at i:12784564 original size:101 final size:101
Alignment explanation
Indices: 12784383--12784567 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
12784373 GTTCGGTTCA
* * *
12784383 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGAA
12784448 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
* * * *
12784485 CATAGTAGCCTACACATTGTACTACACATGCGACC-TATCATTCTAGTACACGTAGTAGCCTGAA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGA-TACACGTAGTAGCCTGAA
12784549 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
12784568 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 7 0.09
101 36 0.48
102 32 0.43
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGAAC
ATAGTACTACACACGTGATCAAAACTATCCGGTACG
Found at i:12786876 original size:27 final size:27
Alignment explanation
Indices: 12786846--12786910 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
12786836 CCTATCCGGT
12786846 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
12786873 AGGCGCCAATGAAGGTGCCTCATTGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
12786900 AGGCGCCAATG
1 AGGCGCCAATG
12786911 GCCTTCTGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:12787150 original size:12 final size:12
Alignment explanation
Indices: 12787133--12787158 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12787123 TTTGTGAATT
12787133 TTTTAGAAGATA
1 TTTTAGAAGATA
12787145 TTTTAGAAGATA
1 TTTTAGAAGATA
12787157 TT
1 TT
12787159 GTGAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTTAGAAGATA
Found at i:12787253 original size:22 final size:21
Alignment explanation
Indices: 12787227--12787604 Score: 265
Period size: 22 Copynumber: 17.0 Consensus size: 21
12787217 TAGATTAGAA
*
12787227 TTTTGTATGAATATTCTAACTT
1 TTTTGTATGAATATTGTAA-TT
12787249 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
12787270 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
12787288 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
12787309 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
12787331 TATAGTTTTGGAT-TAGTAA--
1 TTTTG-TATGAATATTGTAATT
*
12787350 -TTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
12787370 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
12787389 TTTTGTATGAATATTGTAATTT
1 TTTTGTATGAATATTGTAA-TT
*
12787411 TTTTATATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
*
12787436 AGTTTTGTATGAATATTGCAATTT
1 --TTTTGTATGAATATTGTAA-TT
12787460 TTTTGTATGAATATTGTAATTTTGT
1 TTTTGTATGAATATTGTAA---T-T
12787485 AATTTTGTATGAATATTGTAATTT
1 --TTTTGTATGAATATTGTAA-TT
12787509 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
*
12787534 AATTTTGTATGAATATTGCAATTT
1 --TTTTGTATGAATATTGTAA-TT
12787558 TTTTGTATGAATATTGTAATATTGT
1 TTTTGTATGAATATTGT-A-A-T-T
12787583 AATTTTGTATGAATATTGTAAT
1 --TTTTGTATGAATATTGTAAT
12787605 GTCGGGATAT
Statistics
Matches: 295, Mismatches: 25, Indels: 70
0.76 0.06 0.18
Matches are distributed among these distances:
17 5 0.02
18 9 0.03
19 33 0.11
20 17 0.06
21 28 0.09
22 94 0.32
23 11 0.04
24 15 0.05
25 13 0.04
26 3 0.01
27 67 0.23
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.54
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:12787298 original size:19 final size:19
Alignment explanation
Indices: 12787225--12787604 Score: 184
Period size: 19 Copynumber: 21.2 Consensus size: 19
12787215 TTTAGATTAG
*
12787225 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
12787244 AACTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
*
12787266 AATTTTTTTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
12787286 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
12787305 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
12787328 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
*
12787348 AA-TTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
12787366 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
12787387 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
12787406 AATTTT-T-T-TATA-TG-
1 AATTTTGTATGAATATTGT
* *
12787420 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
* *
12787436 AGTTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
12787455 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
12787469 AATATTG--T-AATTTTGT
1 AATTTTGTATGAATATTGT
12787485 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
12787504 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
12787518 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
*
12787534 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
12787553 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
*
12787567 AATATTG--T-AATATTGT
1 AATTTTGTATGAATATTGT
12787583 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
12787602 AAT
1 AAT
12787605 GTCGGGATAT
Statistics
Matches: 276, Mismatches: 38, Indels: 94
0.68 0.09 0.23
Matches are distributed among these distances:
13 3 0.01
14 29 0.11
15 14 0.05
16 32 0.12
17 6 0.02
18 19 0.07
19 93 0.34
20 30 0.11
21 19 0.07
22 23 0.08
23 4 0.01
24 3 0.01
25 1 0.00
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:12787398 original size:101 final size:89
Alignment explanation
Indices: 12787350--12787583 Score: 288
Period size: 98 Copynumber: 2.5 Consensus size: 89
12787340 GGATTAGTAA
* *
12787350 TTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTTTTTT
1 TTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTT
*
12787415 ATATGAATATTGTAATATTATAGT
66 ATATAAATATTGTAATATTATAGT
*
12787439 TTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGT
1 TTTGTATGAATATTGTAA-TTTTTTGTATG-A-A---T-A--TTGTAATTTTGTATGAATATTGT
* * * *
12787504 AATTTTTTTGTATGAATATTGTAATATTATAAT
57 AATTATTTTATATAAATATTGTAATATTATAGT
* *
12787537 TTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTA
1 TTTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTAATTTTGTA
12787584 ATTTTGTATG
Statistics
Matches: 131, Mismatches: 5, Indels: 17
0.86 0.03 0.11
Matches are distributed among these distances:
89 16 0.12
90 23 0.18
91 1 0.01
92 2 0.02
93 1 0.01
95 1 0.01
96 2 0.02
97 1 0.01
98 84 0.64
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (89 bp):
TTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTT
ATATAAATATTGTAATATTATAGT
Found at i:12787442 original size:49 final size:49
Alignment explanation
Indices: 12787379--12787657 Score: 404
Period size: 49 Copynumber: 5.7 Consensus size: 49
12787369 TTTTTGTATG
*
12787379 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTATATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* * *
12787428 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
*
12787477 AATTTTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* *
12787526 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* ** *
12787575 AATATTGTAATTTTGTATGAATATTGTAA--TGTCGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
*
12787620 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAA--TTTTGTATGAATATTGTAATTTTTTT
12787658 ATAATTAATT
Statistics
Matches: 205, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
45 17 0.08
47 24 0.12
49 164 0.80
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
Found at i:12787446 original size:27 final size:25
Alignment explanation
Indices: 12787379--12787604 Score: 242
Period size: 27 Copynumber: 9.1 Consensus size: 25
12787369 TTTTTGTATG
12787379 AATATTGTAATTTTGTATGAATATTGT
1 AATATT-T-ATTTTGTATGAATATTGT
*
12787406 -A-ATTT-TTTTATATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
12787428 AATATTATAGTTTTGTATGAATATTG-
1 AATATT-TA-TTTTGTATGAATATTGT
*
12787454 CA-ATTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
*
12787477 AATTTTGTAATTTTGTATGAATATTGT
1 AATATT-T-ATTTTGTATGAATATTGT
12787504 -A-ATTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
12787526 AATATTATAATTTTGTATGAATATTG-
1 AATATT-T-ATTTTGTATGAATATTGT
*
12787552 CA-ATTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
12787575 AATATTGTAATTTTGTATGAATATTGT
1 AATATT-T-ATTTTGTATGAATATTGT
12787602 AAT
1 AAT
12787605 GTCGGGATAT
Statistics
Matches: 171, Mismatches: 8, Indels: 40
0.78 0.04 0.18
Matches are distributed among these distances:
22 65 0.38
23 4 0.02
24 15 0.09
25 15 0.09
26 4 0.02
27 68 0.40
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (25 bp):
AATATTTATTTTGTATGAATATTGT
Found at i:12787727 original size:60 final size:60
Alignment explanation
Indices: 12787645--12787766 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
12787635 TGTATGAATA
* * * * * *
12787645 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTTGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
12787705 TTGTAATTA-TTTAAAATGTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAAT-TAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
12787765 TT
1 TT
12787767 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 7 0.13
60 47 0.87
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:12787921 original size:15 final size:15
Alignment explanation
Indices: 12787880--12787921 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
12787870 GTTAACTTAT
*
12787880 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
12787895 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
12787911 TTAAATTTTAT
1 TTAAATTTTAT
12787922 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:12790647 original size:22 final size:23
Alignment explanation
Indices: 12790622--12790675 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
12790612 AATACCTTAT
*
12790622 TTTTTCTTCT-TTTCCTTCCTTC
1 TTTTTCTTCTGCTTCCTTCCTTC
12790644 -TTTTCTTCTGCTTCCTTCCTTC
1 TTTTTCTTCTGCTTCCTTCCTTC
12790666 TTATTTCTTC
1 TT-TTTCTTC
12790676 CGTTTCTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.32
22 11 0.39
23 1 0.04
24 7 0.25
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTCTTCTGCTTCCTTCCTTC
Found at i:12797423 original size:2 final size:2
Alignment explanation
Indices: 12797416--12797450 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12797406 TCCCATCTTT
12797416 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12797451 TTACATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12798168 original size:30 final size:31
Alignment explanation
Indices: 12798134--12798193 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
12798124 AAACCTTTTA
*
12798134 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
12798164 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
12798194 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:12798334 original size:19 final size:20
Alignment explanation
Indices: 12798293--12798339 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
12798283 CAAACTTTTA
* **
12798293 TTCCCCAAAACTTTTTATTT
1 TTCCCCTAAACTTTTTACAT
12798313 TTCCCCTAAAC-TTTTACAT
1 TTCCCCTAAACTTTTTACAT
12798332 TTCACCCT
1 TTC-CCCT
12798340 TTACTCCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (20 bp):
TTCCCCTAAACTTTTTACAT
Found at i:12798470 original size:17 final size:17
Alignment explanation
Indices: 12798450--12798496 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
12798440 CACATTTTAT
12798450 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
12798467 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
12798485 A-TATTTATATTA
1 ATTATTTATATTA
12798497 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:12801887 original size:21 final size:23
Alignment explanation
Indices: 12801839--12801888 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
12801829 AGAAAAGAGG
*
12801839 GAAAAAGAAGGAACGATAGAATA
1 GAAAAAGAAGGAACGATAGAAAA
12801862 GAAAAAGAAGGAA-GA-AGAAAA
1 GAAAAAGAAGGAACGATAGAAAA
*
12801883 TAAAAA
1 GAAAAA
12801889 TAAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 2 0.08
23 13 0.52
ACGTcount: A:0.68, C:0.02, G:0.24, T:0.06
Consensus pattern (23 bp):
GAAAAAGAAGGAACGATAGAAAA
Found at i:12805113 original size:9 final size:9
Alignment explanation
Indices: 12805099--12805129 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
12805089 GTTAAACGAA
12805099 TCGAGTTAT
1 TCGAGTTAT
*
12805108 TCGAGTTAA
1 TCGAGTTAT
12805117 TCGAGTTAT
1 TCGAGTTAT
12805126 TCGA
1 TCGA
12805130 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:12806552 original size:23 final size:23
Alignment explanation
Indices: 12806526--12806572 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
12806516 CGAAACCAAT
*
12806526 AAGCA-ACTAGCAGCAACAGAAAA
1 AAGCACACTAG-AACAACAGAAAA
*
12806549 AAGCACACTAGAATAACAGAAAA
1 AAGCACACTAGAACAACAGAAAA
12806572 A
1 A
12806573 TTGCAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.60, C:0.19, G:0.15, T:0.06
Consensus pattern (23 bp):
AAGCACACTAGAACAACAGAAAA
Found at i:12808032 original size:12 final size:11
Alignment explanation
Indices: 12808014--12808044 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
12808004 TTTATGTAGT
12808014 ATTTATTTTTA
1 ATTTATTTTTA
12808025 ATTATATTTTTA
1 ATT-TATTTTTA
12808037 ATTTATTT
1 ATTTATTT
12808045 CAAACTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:12811655 original size:16 final size:15
Alignment explanation
Indices: 12811636--12811689 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
12811626 AAATTATTAT
*
12811636 GAAATAAAAGAATAGA
1 GAAATAAAAGAACA-A
12811652 GAAAGTAAAAGAACAA
1 GAAA-TAAAAGAACAA
**
12811668 GAAATAGGAGAACAA
1 GAAATAAAAGAACAA
12811683 -AAATAAA
1 GAAATAAA
12811690 CATATGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 5 0.16
15 9 0.28
16 9 0.28
17 9 0.28
ACGTcount: A:0.69, C:0.04, G:0.19, T:0.09
Consensus pattern (15 bp):
GAAATAAAAGAACAA
Found at i:12814138 original size:3 final size:3
Alignment explanation
Indices: 12814130--12814167 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12814120 CATGCTTAAA
12814130 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
12814168 AGACAAAGAA
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:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:12815541 original size:19 final size:19
Alignment explanation
Indices: 12815519--12815556 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
12815509 TCAATCATCC
12815519 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
12815538 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
12815557 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:12820120 original size:17 final size:16
Alignment explanation
Indices: 12820094--12820128 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12820084 AAAATGTTTT
12820094 AAAATCTTAAAAAAGTA
1 AAAATCTT-AAAAAGTA
*
12820111 AAAATTTTAAAAAGTA
1 AAAATCTTAAAAAGTA
12820127 AA
1 AA
12820129 TATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAATCTTAAAAAGTA
Found at i:12825942 original size:15 final size:15
Alignment explanation
Indices: 12825922--12825950 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12825912 ACTTCCTTCG
12825922 TCAGCATCCTCATCA
1 TCAGCATCCTCATCA
12825937 TCAGCATCCTCATC
1 TCAGCATCCTCATC
12825951 CTCATCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.41, G:0.07, T:0.28
Consensus pattern (15 bp):
TCAGCATCCTCATCA
Found at i:12825950 original size:6 final size:6
Alignment explanation
Indices: 12825941--12825989 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
12825931 TCATCATCAG
* * *
12825941 CATCCT CATCCT CATCCT CTTCCT CA---T CATCCT CTTCCT CCTCCT
1 CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT
12825986 CATC
1 CATC
12825990 ATCGTCATCG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
3 3 0.09
6 32 0.91
ACGTcount: A:0.12, C:0.51, G:0.00, T:0.37
Consensus pattern (6 bp):
CATCCT
Found at i:12825970 original size:21 final size:21
Alignment explanation
Indices: 12825946--12825998 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
12825936 ATCAGCATCC
*
12825946 TCATCCTCATCCTCTTCCTCA
1 TCATCCTCATCCTCCTCCTCA
*
12825967 TCATCCTCTTCCTCCTCCTCA
1 TCATCCTCATCCTCCTCCTCA
*
12825988 TCATCGTCATC
1 TCATCCTCATC
12825999 GTCATCTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.13, C:0.47, G:0.02, T:0.38
Consensus pattern (21 bp):
TCATCCTCATCCTCCTCCTCA
Found at i:12825972 original size:15 final size:15
Alignment explanation
Indices: 12825952--12825980 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12825942 ATCCTCATCC
12825952 TCATCCTCTTCCTCA
1 TCATCCTCTTCCTCA
12825967 TCATCCTCTTCCTC
1 TCATCCTCTTCCTC
12825981 CTCCTCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.48, G:0.00, T:0.41
Consensus pattern (15 bp):
TCATCCTCTTCCTCA
Found at i:12827823 original size:18 final size:17
Alignment explanation
Indices: 12827778--12827824 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
12827768 AAAATATCAA
*
12827778 AAAACAAAAA-AAAATG
1 AAAACAAAAACAAAAAG
12827794 AAAA-AAATAACAAAAAG
1 AAAACAAA-AACAAAAAG
12827811 AAAACCAAAAACAA
1 AAAA-CAAAAACAA
12827825 TTATGGGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 3 0.12
16 6 0.23
17 9 0.35
18 5 0.19
19 3 0.12
ACGTcount: A:0.81, C:0.11, G:0.04, T:0.04
Consensus pattern (17 bp):
AAAACAAAAACAAAAAG
Found at i:12827843 original size:28 final size:28
Alignment explanation
Indices: 12827811--12827866 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
12827801 TAACAAAAAG
12827811 AAAACCAAAAACAATTATGGGTGTCACC
1 AAAACCAAAAACAATTATGGGTGTCACC
12827839 AAAACCAAAAACAATTATGGGTGTCACC
1 AAAACCAAAAACAATTATGGGTGTCACC
12827867 CACCTTGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.18
Consensus pattern (28 bp):
AAAACCAAAAACAATTATGGGTGTCACC
Found at i:12829372 original size:278 final size:280
Alignment explanation
Indices: 12828765--12830359 Score: 1904
Period size: 278 Copynumber: 5.7 Consensus size: 280
12828755 TAAAGAAAAT
* ** * * * * * * **
12828765 TTTAGTTAGTGTAAATAAAAATAATAATTAGGTTTAAGTTATAGCGTTGTAATTTAGGATAAATC
1 TTTAGTAAGTGTAAATAAACGTAATATTTAGATTCAAGTTATAACGCTATAATTTAGGATAGGTC
* * * *
12828830 TAAATTATGGTGCCAATATTTATTGTTTTATAATAATTACCATATCTCTATAATTTAGTTGACGT
66 TAAATTATGGTGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAATTTAGTTGACGT
* * * * *
12828895 CGTTCGTCATGTCAAGCTCAATAATAGAATTAGTAAGT-AAAATGGAATTAATGTTTAGATTTAA
131 CATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGATTTAA
* * * * *
12828959 ACAATTATACTATTTTTTTAAAAATTTATGTTTAATAATTTCTTCAATTGAATTGACG-CTATCC
196 ACAATAATA-TA-TTTTTAAAAAATTTATGTTTAATAATTTCTACAATTGAGTTGACGTC-ATTC
* * *
12829023 ATTATGTTAAGCATAAAGAAAGA
258 ATGATGTTAAGCTTAAAAAAAGA
* * * * *
12829046 TATAGTAAGTGTAAATAAAAGTGATGTTTAGATTCAAGTCATAACGCTATAATTTAGGATAGGTC
1 TTTAGTAAGTGTAAATAAACGTAATATTTAGATTCAAGTTATAACGCTATAATTTAGGATAGGTC
** * * * *
12829111 TAAATTATGACGCTAATATTCATTATTTTATAATAATTACTATATCTCTATAATCTAGTTAACGT
66 TAAATTATGGTGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAATTTAGTTGACGT
* *
12829176 CATTGGTCATGTTAAGCTCGATGATAGATTTAGTAAATAAAAATGGAATTAATGTTTAGATTTAA
131 CATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGATTTAA
* * * * * *
12829241 ACAA-CA-ATATTTTAAAAAAAATTATGTTTAATAATTTCTGCAATTGAGTTGATGTCATTCATA
196 ACAATAATATATTTTTAAAAAATTTATGTTTAATAATTTCTACAATTGAGTTGACGTCATTCATG
12829304 ATGTTAAGCTTAAAAAAAGA
261 ATGTTAAGCTTAAAAAAAGA
* * * *
12829324 TTTAGTAAGTGTAAATAAACGGAATATGTAGATTCAAGTTAGAACGCTATAATTTAGGATAAGTC
1 TTTAGTAAGTGTAAATAAACGTAATATTTAGATTCAAGTTATAACGCTATAATTTAGGATAGGTC
* * * *
12829389 TAAATTATGGTGCCAATATTCATTATTTTATCATAATTATTATTTCTTTATAATTTAGTTGATGT
66 TAAATTATGGTGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAATTTAGTTGACGT
*
12829454 CATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATGTTTATATTTAA
131 CATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGATTTAA
* * *
12829519 ACAATAATAT-TTTTAAAAAAAAATTATGTTTAATCATTTCTACAA-TGAGTTGA-GTCATTCAT
196 ACAATAATATATTTT-TAAAAAATTTATGTTTAATAATTTCTACAATTGAGTTGACGTCATTCAT
12829581 GATGTTAAGCTTAAAGAAAA-A
260 GATGTTAAGCTTAAA-AAAAGA
* * *
12829602 ATTAATAAGTGTAAATAAACATAATATTTAGATTCAAGTTATAACGCTATAATTTAGGATAGGTC
1 TTTAGTAAGTGTAAATAAACGTAATATTTAGATTCAAGTTATAACGCTATAATTTAGGATAGGTC
*
12829667 TAAATTATGGTGCCAATATTCATTATTTTATCATAATTACTATATCTTTATAATTTAGTTGACGT
66 TAAATTATGGTGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAATTTAGTTGACGT
* * *
12829732 CATCGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAACTACTGTTTAGATTTAA
131 CATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGATTTAA
* * * *
12829797 ACAATAATATTATTTTTATAAAATTTATGTTTAATCATATCTACAATTGAGTTAACGTCATTCAT
196 ACAATAATA-TATTTTTAAAAAATTTATGTTTAATAATTTCTACAATTGAGTTGACGTCATTCAT
* *
12829862 GATATTAAACTT-AAAAAAGA
260 GATGTTAAGCTTAAAAAAAGA
* * *
12829882 TTTAGTAAGTGTAAATAAACGTAATATATATTTAGATTTAAGTTATAACACTATAATTTAGGTTA
1 TTTAGTAAGTGTAAATAAACG---TA-ATATTTAGATTCAAGTTATAACGCTATAATTTAGGATA
** * ** *
12829947 GGTCTAAATTATGGCACCAATATTCATTA-TTTATGATAATTACTATATCTTTATAATAAACTTG
62 GGTCTAAATTATGGTGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAATTTAGTTG
* * * * * * *
12830011 ACGTCATTTGTCGTATTAAGCTCAATGGTATATTTAGTAAGTAAAAATGAAATTAATGTTCAGAT
127 ACGTCATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGAT
* * * *
12830076 TTAAACAATAATATATATTTTTAAAATTTTATGTTTAATAATTTTTACAATTGAGTTGACGTGAT
192 TTAAACAATAATATAT-TTTTAAAAAATTTATGTTTAATAATTTCTACAATTGAGTTGACGTCAT
* *
12830141 TCATGATGTAAAGCTTAAAGAAAGA
256 TCATGATGTTAAGCTTAAAAAAAGA
* * * * ** * *
12830166 TTCAGTAAGTATAAATGAAA-GTAATGTTTAGATTTAAGCAATAACGCAATAATTTAGGATATGT
1 TTTAGTAAGTGTAAAT-AAACGTAATATTTAGATTCAAGTTATAACGCTATAATTTAGGATAGGT
* * * * * *
12830230 CT-AATATATGATG-TAATTATTTATTATTTTATAA-ATTTACTATATTTTTAAAATTTAGTTGA
65 CTAAAT-TATGGTGCCAA-TATTCATTATTTTATAATAATTACTATATCTTTATAATTTAGTTGA
* * * * * * * *
12830292 TGGTTATTCGTGACGTTAAGATTAATGATAGATTTAGTAAGTAAAAAATGAAATTAATGTTTAGA
128 -CGTCATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGT-AAAAATGGAATTAATGTTTAGA
12830357 TTT
191 TTT
12830360 TAATTTAAAC
Statistics
Matches: 1137, Mismatches: 154, Indels: 45
0.85 0.12 0.03
Matches are distributed among these distances:
278 453 0.40
279 56 0.05
280 133 0.12
281 197 0.17
282 57 0.05
283 154 0.14
284 84 0.07
285 3 0.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (280 bp):
TTTAGTAAGTGTAAATAAACGTAATATTTAGATTCAAGTTATAACGCTATAATTTAGGATAGGTC
TAAATTATGGTGCCAATATTCATTATTTTATAATAATTACTATATCTTTATAATTTAGTTGACGT
CATTGGTCATGTTAAGCTCAATGATAGATTTAGTAAGTAAAAATGGAATTAATGTTTAGATTTAA
ACAATAATATATTTTTAAAAAATTTATGTTTAATAATTTCTACAATTGAGTTGACGTCATTCATG
ATGTTAAGCTTAAAAAAAGA
Found at i:12834007 original size:29 final size:28
Alignment explanation
Indices: 12833962--12834030 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
12833952 GTAAGGGTTA
* * *
12833962 ATTTCATTTTTTAATATTATTAATTTTT
1 ATTTAATTTTTTAATATAATTAATATTT
12833990 ATTTAATTTTTATAATATAATTAATATTT
1 ATTTAATTTTT-TAATATAATTAATATTT
12834019 -TTTATATTTTTT
1 ATTTA-ATTTTTT
12834031 TTATAATAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 15 0.42
29 21 0.58
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (28 bp):
ATTTAATTTTTTAATATAATTAATATTT
Found at i:12835142 original size:43 final size:43
Alignment explanation
Indices: 12835074--12835378 Score: 300
Period size: 43 Copynumber: 7.2 Consensus size: 43
12835064 CTATTGACAC
* * * * *
12835074 CGCCGCTATAGAACAAGACCTTTAGCGGCACTTTTTCAACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAA
* *
12835117 CGTCGCTAAAGATCATGACTTTTAGC-GCG-TTTTTCCTACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCC-ACAAA
* * *
12835159 CACCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAA
* * * *
12835202 CGCCGCTATAGGTCATGACTTTTAGCAGCGCTGTTCCCACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAA
* * ** *
12835245 CGCCGCTATAGATAATCACTTTTAGCGAAGCTTTTCCCACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAA
* * * * *
12835288 TGCCACTATAGAACA-GACCTTTAGCGACGC-TTTTCTCACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTC-CACAAA
* *
12835330 CGCCGCTAAAGATCA-GACCTTTAGCGGCGC-TTTTCACACAAA
1 CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTC-CACAAA
12835372 CG-CGCTA
1 CGCCGCTA
12835379 AAAACATATC
Statistics
Matches: 222, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
41 15 0.07
42 85 0.38
43 116 0.52
44 6 0.03
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (43 bp):
CGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTTCCACAAA
Found at i:12835219 original size:85 final size:85
Alignment explanation
Indices: 12835074--12835378 Score: 330
Period size: 85 Copynumber: 3.6 Consensus size: 85
12835064 CTATTGACAC
* * * * * * *
12835074 CGCCGCTATAGAACAAGACCTTTAGCGGCACTTTTTCAACAAACGTCGCTAAAGATCATGACTTT
1 CGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGACTTT
*
12835139 TAGCGCGTTTTTCCTACAAA
66 TAGCGCGCTTTTCCTACAAA
* * * *
12835159 CACCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATGACTTT
1 CGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGACTTT
* *
12835224 TAGCAGCGCTGTTCCCACAAA
66 TAGC-GCGCTTTTCCTACAAA
* * * ** * * * *
12835245 CGCCGCTATAGATAATCACTTTTAGCGAAGCTTTTCCCACAAATGCCACTATAGAACA-GACCTT
1 CGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGACTTT
12835309 TAGCGACGCTTTT-CTCACAAA
66 TAGCG-CGCTTTTCCT-ACAAA
* *
12835330 CGCCGCTAAAGATCA-GACCTTTAGCGGCGCTTTTCACACAAACG-CGCTA
1 CGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
12835379 AAAACATATC
Statistics
Matches: 181, Mismatches: 36, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
83 4 0.02
84 25 0.14
85 91 0.50
86 61 0.34
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (85 bp):
CGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCATGACTTT
TAGCGCGCTTTTCCTACAAA
Found at i:12835692 original size:43 final size:43
Alignment explanation
Indices: 12835626--12835712 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
12835616 ACATATGCAA
* * * *
12835626 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATAAAGGAAATCTT
* *
12835669 GGTAATAAAAGATATAATACATTTACTTAATAAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATAAAGGAAATCTT
12835712 G
1 G
12835713 TACATCATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATAAAGGAAATCTT
Found at i:12839371 original size:25 final size:25
Alignment explanation
Indices: 12839343--12839430 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
12839333 TTTTTAAATC
**
12839343 TATATATATGTATATTTATTTCTTT
1 TATATATATACATATTTATTTCTTT
*
12839368 TATATATGTACATATTTATTT-TTT
1 TATATATATACATATTTATTTCTTT
* *
12839392 T-TCA-A-CTA-ATATTTTTTTCATATT
1 TAT-ATATATACATATTTATTTC-T-TT
12839416 TATATATATACATAT
1 TATATATATACATAT
12839431 ATTTATTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
21 9 0.18
22 2 0.04
23 3 0.06
24 9 0.18
25 20 0.41
26 2 0.04
27 4 0.08
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (25 bp):
TATATATATACATATTTATTTCTTT
Found at i:12839375 original size:23 final size:24
Alignment explanation
Indices: 12839345--12839393 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
12839335 TTTAAATCTA
12839345 TATATATGT-ATATTTATTTCTTT
1 TATATATGTAATATTTATTTCTTT
*
12839368 TATATATGTACATATTTATTTTTTT
1 TATATATGTA-ATATTTATTTCTTT
12839393 T
1 T
12839394 CAACTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.39
25 14 0.61
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TATATATGTAATATTTATTTCTTT
Found at i:12839383 original size:21 final size:22
Alignment explanation
Indices: 12839345--12839389 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
12839335 TTTAAATCTA
* *
12839345 TATATATGTATATTTATTTCTTT
1 TATATATGTACA-TTATTTATTT
12839368 TATATATGTACA-TATTTATTT
1 TATATATGTACATTATTTATTT
12839389 T
1 T
12839390 TTTTCAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (22 bp):
TATATATGTACATTATTTATTT
Found at i:12839420 original size:17 final size:17
Alignment explanation
Indices: 12839378--12839420 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
12839368 TATATATGTA
12839378 CATATTTAT-TTTTTTT
1 CATATTTATATTTTTTT
* *
12839394 CA-ACTAATATTTTTTT
1 CATATTTATATTTTTTT
12839410 CATATTTATAT
1 CATATTTATAT
12839421 ATATACATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
15 4 0.19
16 11 0.52
17 6 0.29
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (17 bp):
CATATTTATATTTTTTT
Found at i:12839857 original size:4 final size:4
Alignment explanation
Indices: 12839850--12839884 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
12839840 TTGATTTATT
12839850 TTTA TTTA TTTA TTTA -TTA TTTA TTTA TATTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTT
12839885 CTATACAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 22 0.76
5 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:12839871 original size:15 final size:15
Alignment explanation
Indices: 12839843--12839883 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
12839833 CATGTCATTG
12839843 ATTTATTT-TTATTT
1 ATTTATTTATTATTT
12839857 ATTTATTTATTATTT
1 ATTTATTTATTATTT
12839872 ATTTATATTATT
1 ATTTAT-TTATT
12839884 TCTATACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.32
15 12 0.48
16 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTATTTATTATTT
Found at i:12842199 original size:14 final size:14
Alignment explanation
Indices: 12842149--12842202 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
12842139 AACACTAATT
12842149 AATC-TAAACCCTA
1 AATCTTAAACCCTA
*
12842162 AACTCTTAACCCCTA
1 AA-TCTTAAACCCTA
**
12842177 TCTCTTAAACCCTA
1 AATCTTAAACCCTA
*
12842191 AATCATAAACCC
1 AATCTTAAACCC
12842203 CTCACCCTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 2 0.06
14 22 0.69
15 8 0.25
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.26
Consensus pattern (14 bp):
AATCTTAAACCCTA
Found at i:12842212 original size:29 final size:29
Alignment explanation
Indices: 12842153--12842213 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
12842143 CTAATTAATC
* *
12842153 TAAACCCTAAACTCTTAACCCCTATCTCT
1 TAAACCCTAAACTCTAAACCCCTATCCCT
12842182 TAAACCCTAAA-TCATAAACCCCTCA-CCCT
1 TAAACCCTAAACTC-TAAACCCCT-ATCCCT
12842211 TAA
1 TAA
12842214 GTACTCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 25 0.89
30 1 0.04
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (29 bp):
TAAACCCTAAACTCTAAACCCCTATCCCT
Found at i:12842762 original size:41 final size:41
Alignment explanation
Indices: 12842697--12842886 Score: 229
Period size: 41 Copynumber: 4.6 Consensus size: 41
12842687 TACTTTTTGT
*
12842697 GGCG-TTTTTCCAAAAACGCTGCTAAAGACCAGAGCATTAGC
1 GGCGCTTTTT-CAAAAACGCCGCTAAAGACCAGAGCATTAGC
**
12842738 GGCGCTTTTTCAAAAACGCCGCTAAAGATTAGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGC
* * * *
12842779 GGTGCTTTTCCAAAAACGCCGCTAAAGACTAGAACATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGC
* * * * *
12842820 GGTGCATTTCCAAAAACGCCGCTAAAGCCCCGAGCATTAGC
1 GGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGC
* * *
12842861 GGCGCTTCTTGAGAAACGCCGCTAAA
1 GGCGCTTTTTCAAAAACGCCGCTAAA
12842887 TCCCTGAAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 125 0.96
42 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (41 bp):
GGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGC
Found at i:12844206 original size:29 final size:30
Alignment explanation
Indices: 12844174--12844252 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 30
12844164 AAACAAAATC
12844174 CATCTCGTTAAAATAT-TTTTTTCAGAACA
1 CATCTCGTTAAAATATATTTTTTCAGAACA
* * * *
12844203 CATCACGGT-AAATTTATTTTTTCAGAACC
1 CATCTCGTTAAAATATATTTTTTCAGAACA
* *
12844232 CATCTTGTCAAAATTATATTT
1 CATCTCGTTAAAA-TATATTT
12844253 CCCAGAGTAG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
28 5 0.13
29 24 0.63
30 3 0.08
31 6 0.16
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.42
Consensus pattern (30 bp):
CATCTCGTTAAAATATATTTTTTCAGAACA
Found at i:12844364 original size:46 final size:46
Alignment explanation
Indices: 12844292--12844387 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 46
12844282 TTAAACCTTA
* * * * **
12844292 AAACCCTAAATAATTTAAAATCTAATACCCTAATTGTATTTTTCCT
1 AAACACTAAACAATTAAAAATATAATACCCTAATTCAATTTTTCCT
* *
12844338 AAACACTAAACAATTAAAAATATAATACCGTACTTCAATTTTTCCT
1 AAACACTAAACAATTAAAAATATAATACCCTAATTCAATTTTTCCT
12844384 AAAC
1 AAAC
12844388 CTTAATAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACACTAAACAATTAAAAATATAATACCCTAATTCAATTTTTCCT
Found at i:12844414 original size:65 final size:65
Alignment explanation
Indices: 12844338--12844479 Score: 194
Period size: 65 Copynumber: 2.2 Consensus size: 65
12844328 TATTTTTCCT
* * * *
12844338 AAACACTAAACAATTAAAAATATAATACCGTACTTCAATTTTTCCTAAACCTTAATAAAACCCTA
1 AAACACTAAACAATTAAAAACATAATACCGTAATTCAATTTATCCTAAACCCTAATAAAACCCTA
* ** * *
12844403 AAACTCTAAACAATTAAAAACATAATACTTTAATTTAATTTATCCTAAACCCTAATCAAACCCTA
1 AAACACTAAACAATTAAAAACATAATACCGTAATTCAATTTATCCTAAACCCTAATAAAACCCTA
*
12844468 AAACCCTAAACA
1 AAACACTAAACA
12844480 TAGGCCTTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.49, C:0.23, G:0.01, T:0.28
Consensus pattern (65 bp):
AAACACTAAACAATTAAAAACATAATACCGTAATTCAATTTATCCTAAACCCTAATAAAACCCTA
Found at i:12850210 original size:19 final size:18
Alignment explanation
Indices: 12850188--12850246 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
12850178 TCACAAAAAG
12850188 AAATTAAAATAATTTTCAA
1 AAATTAAAATAATTTT-AA
12850207 AAATTCAAAAT-ATTTATAA
1 AAATT-AAAATAATTT-TAA
*
12850226 AAATTTTAAA-AATTTTAA
1 AAA-TTAAAATAATTTTAA
12850244 AAA
1 AAA
12850247 ATTTCAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
18 6 0.17
19 21 0.60
20 8 0.23
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTAAAATAATTTTAA
Found at i:12850245 original size:8 final size:9
Alignment explanation
Indices: 12850198--12850256 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
12850188 AAATTAAAAT
12850198 AATTTTCAAA
1 AATTTT-AAA
*
12850208 AA-TTCAAA
1 AATTTTAAA
12850216 ATATTTATAAA
1 A-ATTT-TAAA
12850227 AATTTTAAA
1 AATTTTAAA
12850236 AATTTTAAAA
1 AATTTT-AAA
*
12850246 AATTTCAAA
1 AATTTTAAA
12850255 AA
1 AA
12850257 AATATGTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
8 4 0.10
9 18 0.43
10 16 0.38
11 4 0.10
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (9 bp):
AATTTTAAA
Found at i:12850257 original size:10 final size:10
Alignment explanation
Indices: 12850201--12850257 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
12850191 TTAAAATAAT
12850201 TTTC-AAAAA
1 TTTCAAAAAA
*
12850210 -TTCAAAATA
1 TTTCAAAAAA
12850219 TTT-ATAAAAA
1 TTTCA-AAAAA
*
12850229 TTT-TAAAAA
1 TTTCAAAAAA
*
12850238 TTTTAAAAAA
1 TTTCAAAAAA
12850248 TTTCAAAAAA
1 TTTCAAAAAA
12850258 ATATGTAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 3 0.08
9 13 0.33
10 23 0.59
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (10 bp):
TTTCAAAAAA
Found at i:12850506 original size:43 final size:43
Alignment explanation
Indices: 12850459--12850540 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
12850449 ACATGTTTAA
12850459 TTTTTAATCTAACATGAACAATTTCACGCGATTCGACCCTAAT
1 TTTTTAATCTAACATGAACAATTTCACGCGATTCGACCCTAAT
**
12850502 TTTTTAATCTAACATGAACAATTTCACTTGATTCGACCC
1 TTTTTAATCTAACATGAACAATTTCACGCGATTCGACCC
12850541 GACCCGACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (43 bp):
TTTTTAATCTAACATGAACAATTTCACGCGATTCGACCCTAAT
Found at i:12856551 original size:17 final size:18
Alignment explanation
Indices: 12856525--12856568 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
12856515 CGCTTATAGA
* *
12856525 GAAAAAAAACAGA-AAAT
1 GAAAAGAAACAGAGAAAG
*
12856542 TAAAAGAAACAGAGAAAG
1 GAAAAGAAACAGAGAAAG
12856560 GAAAAGAAA
1 GAAAAGAAA
12856569 AACAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.73, C:0.05, G:0.18, T:0.05
Consensus pattern (18 bp):
GAAAAGAAACAGAGAAAG
Found at i:12856577 original size:20 final size:19
Alignment explanation
Indices: 12856548--12856588 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
12856538 AAATTAAAAG
*
12856548 AAACAGAGAAAGGAAAAGAA
1 AAACAAAGAAA-GAAAAGAA
*
12856568 AAACAAAGAAAGAAAATAA
1 AAACAAAGAAAGAAAAGAA
12856587 AA
1 AA
12856589 CTGCCAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (19 bp):
AAACAAAGAAAGAAAAGAA
Found at i:12857574 original size:5 final size:5
Alignment explanation
Indices: 12857555--12857586 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
12857545 CAAGAAAGAA
12857555 AAATT -AATT -AATT AAATT AAATT AAATT AAAT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAAT
12857587 AATTAATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AAATT
Found at i:12862501 original size:24 final size:24
Alignment explanation
Indices: 12862474--12862523 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
12862464 TGTTTAATTC
12862474 AAGTAATTTATGTATGTATGCACT
1 AAGTAATTTATGTATGTATGCACT
12862498 AAGTAATTTATGTATGTATGCACT
1 AAGTAATTTATGTATGTATGCACT
12862522 AA
1 AA
12862524 CTTGTGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (24 bp):
AAGTAATTTATGTATGTATGCACT
Found at i:12865066 original size:41 final size:41
Alignment explanation
Indices: 12865009--12865099 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
12864999 CTGAAAACCA
*
12865009 AAAATGTAAAACAGAGAACCCAATCAATTGGTTATGCAATT
1 AAAATCTAAAACAGAGAACCCAATCAATTGGTTATGCAATT
12865050 AAAATCTAAAACAGAGAACCCAATCAATTGGTTATGCAATT
1 AAAATCTAAAACAGAGAACCCAATCAATTGGTTATGCAATT
12865091 AAAATCTAA
1 AAAATCTAA
12865100 TATTACATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.24
Consensus pattern (41 bp):
AAAATCTAAAACAGAGAACCCAATCAATTGGTTATGCAATT
Found at i:12866459 original size:44 final size:44
Alignment explanation
Indices: 12866390--12866477 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
12866380 AAAGCCTGAG
* ** *
12866390 TTTGAATAGAAAAGGAACTGGAAGCTGGTATGTTGCATATACGA
1 TTTGAACAGAAAAGGAACTAAAAGCTGGTACGTTGCATATACGA
* *
12866434 TTTGAACAGAAAAGGAACTAAAAGCTGGTGCGTTGTATATACGA
1 TTTGAACAGAAAAGGAACTAAAAGCTGGTACGTTGCATATACGA
12866478 CTTCTGCAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (44 bp):
TTTGAACAGAAAAGGAACTAAAAGCTGGTACGTTGCATATACGA
Found at i:12869417 original size:3 final size:3
Alignment explanation
Indices: 12869409--12869449 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
12869399 AGCATTGACC
12869409 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
12869450 TATTGAAGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:12870183 original size:22 final size:22
Alignment explanation
Indices: 12870157--12870201 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
12870147 ATTATGAATA
12870157 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
12870179 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
12870201 T
1 T
12870202 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:12870892 original size:20 final size:18
Alignment explanation
Indices: 12870861--12870897 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
12870851 TGTAATGTTG
12870861 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
12870879 ATATGGTTTAAATTTAATT
1 ATAT-GTTT-AATTTAATT
12870898 CATGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:12875784 original size:25 final size:26
Alignment explanation
Indices: 12875726--12875785 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
12875716 AAATTTTCTC
*
12875726 CTAA-ATTTTAATTTTATTTAATTAT
1 CTAATATTTTAATTTTATTGAATTAT
*
12875751 TTAAT-TTTTCAA-TTTATTGAATTA-
1 CTAATATTTT-AATTTTATTGAATTAT
12875775 CTAATATTTTA
1 CTAATATTTTA
12875786 TACTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
24 5 0.17
25 22 0.76
26 2 0.07
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (26 bp):
CTAATATTTTAATTTTATTGAATTAT
Found at i:12877992 original size:15 final size:15
Alignment explanation
Indices: 12877974--12878003 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12877964 AGCTCGTGAT
12877974 AAAAAAAAGGAAAAG
1 AAAAAAAAGGAAAAG
*
12877989 AAAAAAAAGGGAAAG
1 AAAAAAAAGGAAAAG
12878004 CATATGTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGGAAAAG
Found at i:12886909 original size:57 final size:57
Alignment explanation
Indices: 12886809--12886933 Score: 191
Period size: 57 Copynumber: 2.2 Consensus size: 57
12886799 ATAGAAATGG
12886809 TGAAAATGGAGAAATGAGAAACATTTGGAAATGATTACGGTTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATGATTAC-GTTTTCTCCAAAATAAAAA
**
12886867 TGAAAATGGAGAAATGA-AATTATTTGGAAATGAATGTA-GTTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATG-AT-TACGTTTTCTCCAAAATAAAAA
12886924 TGAAAATGGA
1 TGAAAATGGA
12886934 CCTGGAAATG
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
57 42 0.67
58 19 0.30
59 2 0.03
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.27
Consensus pattern (57 bp):
TGAAAATGGAGAAATGAGAAACATTTGGAAATGATTACGTTTTCTCCAAAATAAAAA
Found at i:12894332 original size:16 final size:17
Alignment explanation
Indices: 12894307--12894339 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12894297 TTCATCACAC
*
12894307 TTAGGTTAA-TTTGCAT
1 TTAGGATAATTTTGCAT
12894323 TTAGGATAATTTTGCAT
1 TTAGGATAATTTTGCAT
12894340 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (17 bp):
TTAGGATAATTTTGCAT
Found at i:12894853 original size:53 final size:52
Alignment explanation
Indices: 12894770--12895123 Score: 349
Period size: 53 Copynumber: 6.7 Consensus size: 52
12894760 GACTCTGAAA
* *
12894770 AAGACCATATCGTGTAAGA-TCGTAGCTGGTGGGTTATGGCATCATATGGAAAT
1 AAGACCATATCGTGTAAGACT-GTAACTGGTGGGTTATGGCATCATATGG-AAG
* * * * *
12894823 AAGATCATCTTGTGTAAAACTGTAATTGGTGGGTTATGGCATCATATGGTAAG
1 AAGACCATATCGTGTAAGACTGTAACTGGTGGGTTATGGCATCATATGG-AAG
* * *
12894876 AAGACCATATCATGGAAGA-TCGTAACTGGTAGGTTATGGCATCATATGTGAAG
1 AAGACCATATCGTGTAAGACT-GTAACTGGTGGGTTATGGCATCATATG-GAAG
**
12894929 AAGACCATATCGTGTAAGACCATAACTGGTGGGTTATGGCATCATATGGGAAG
1 AAGACCATATCGTGTAAGACTGTAACTGGTGGGTTATGGCATCATAT-GGAAG
* ** * * *
12894982 AAGACCATATCATGTAAGACCATAACTAGTGGGTTATGGAATTATATAGGAAG
1 AAGACCATATCGTGTAAGACTGTAACTGGTGGGTTATGGCATCATAT-GGAAG
* ** * * * *
12895035 AAGACCATATCGTGCAAGGTTATAACTAGTGGGTTATGGCATTATACGAGAAG
1 AAGACCATATCGTGTAAGACTGTAACTGGTGGGTTATGGCATCATATG-GAAG
* *
12895088 AAGGCCATA--GTGTAAGA-TCATAACTGGTGGGTTATG
1 AAGACCATATCGTGTAAGACT-GTAACTGGTGGGTTATG
12895124 ACATTATACG
Statistics
Matches: 257, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
50 1 0.00
51 22 0.09
52 2 0.01
53 229 0.89
54 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (52 bp):
AAGACCATATCGTGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGAAG
Found at i:12894944 original size:106 final size:105
Alignment explanation
Indices: 12894770--12895123 Score: 397
Period size: 106 Copynumber: 3.4 Consensus size: 105
12894760 GACTCTGAAA
* * * * * *
12894770 AAGACCATATCGTGTAAGATCGTAGCTGGTGGGTTATGGCATCATATGGAAATAAGATCATCTTG
1 AAGACCATATCATGTAAGATCGTAACTGGTGGGTTATGGCATCATATGG-AAGAAGACCATATCG
** * *
12894835 TGTAAAACTGTAATTGGTGGGTTATGGCATCATATGGTAAG
65 TGTAAAACCATAACTGGTGGGTTATGGCATCATATGGGAAG
* *
12894876 AAGACCATATCATGGAAGATCGTAACTGGTAGGTTATGGCATCATATGTGAAGAAGACCATATCG
1 AAGACCATATCATGTAAGATCGTAACTGGTGGGTTATGGCATCATATG-GAAGAAGACCATATCG
*
12894941 TGTAAGACCATAACTGGTGGGTTATGGCATCATATGGGAAG
65 TGTAAAACCATAACTGGTGGGTTATGGCATCATATGGGAAG
* * * * *
12894982 AAGACCATATCATGTAAGACCATAACTAGTGGGTTATGGAATTATATAGGAAGAAGACCATATCG
1 AAGACCATATCATGTAAGATCGTAACTGGTGGGTTATGGCATCATAT-GGAAGAAGACCATATCG
* **** * * * *
12895047 TGCAAGGTTATAACTAGTGGGTTATGGCATTATACGAGAAG
65 TGTAAAACCATAACTGGTGGGTTATGGCATCATATGGGAAG
* * *
12895088 AAGGCCATA--GTGTAAGATCATAACTGGTGGGTTATG
1 AAGACCATATCATGTAAGATCGTAACTGGTGGGTTATG
12895124 ACATTATACG
Statistics
Matches: 214, Mismatches: 32, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
104 24 0.11
106 188 0.88
107 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (105 bp):
AAGACCATATCATGTAAGATCGTAACTGGTGGGTTATGGCATCATATGGAAGAAGACCATATCGT
GTAAAACCATAACTGGTGGGTTATGGCATCATATGGGAAG
Done.