Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 146 of 218
Found at i:44511779 original size:27 final size:27
Alignment explanation
Indices: 44511749--44511805 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
44511739 TGTCATTGAG
44511749 TTAGTATTAAAGTTTCGTTAGAAAATT
1 TTAGTATTAAAGTTTCGTTAGAAAATT
44511776 TTAGTATTAAAGTTTCGTTAGAAAATT
1 TTAGTATTAAAGTTTCGTTAGAAAATT
44511803 TTA
1 TTA
44511806 ACGTTTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.46
Consensus pattern (27 bp):
TTAGTATTAAAGTTTCGTTAGAAAATT
Found at i:44513057 original size:42 final size:42
Alignment explanation
Indices: 44512984--44513110 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
44512974 TCTTACGAGC
* * * *
44512984 TTCAGTT-AACTCATATGAGTTTCAATTTAACCCTAATGGGT
1 TTCAGTTCAGCTCTTATGAGCTTCAATTTAACCCTTATGGGT
* *
44513025 TTCAGTTCAGCTCTT-TCGAGCTTCATTTTAACCCTTATGAGT
1 TTCAGTTCAGCTCTTAT-GAGCTTCAATTTAACCCTTATGGGT
* ** *
44513067 TTCCGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
1 TTCAGTTCAGCTCTTATGAGCTTCAATTTAACCCTTATGGGT
44513109 TT
1 TT
44513111 TCGTTTAGCA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 8 0.11
42 63 0.88
43 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (42 bp):
TTCAGTTCAGCTCTTATGAGCTTCAATTTAACCCTTATGGGT
Found at i:44513084 original size:21 final size:21
Alignment explanation
Indices: 44513054--44513115 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
44513044 GCTTCATTTT
44513054 AACCCTTATGAGTTTCCGTTC
1 AACCCTTATGAGTTTCCGTTC
* * *
44513075 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGAGTTTCCGTTC
* *
44513096 AACCCTTATGGGTTTTCGTT
1 AACCCTTATGAGTTTCCGTT
44513116 TAGCACTTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (21 bp):
AACCCTTATGAGTTTCCGTTC
Found at i:44513141 original size:42 final size:42
Alignment explanation
Indices: 44513054--44513141 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 42
44513044 GCTTCATTTT
* **
44513054 AACCCTTATGAGTTTCCGTTCAGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGAGTTTCCGTTCAGCACTTATGAGCTTCCGGGC
* * * * * *
44513096 AACCCTTATGGGTTTTCGTTTAGCACTTGTGTGCTTCTGGGC
1 AACCCTTATGAGTTTCCGTTCAGCACTTATGAGCTTCCGGGC
44513138 AACC
1 AACC
44513142 TTCAGGCTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (42 bp):
AACCCTTATGAGTTTCCGTTCAGCACTTATGAGCTTCCGGGC
Found at i:44525553 original size:50 final size:50
Alignment explanation
Indices: 44525478--44525577 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
44525468 TCCTAAGTAT
44525478 ACACGACCTAATGAATGAATGCTTTTAAGGTAACTCAAAGTACAATTATG
1 ACACGACCTAATGAATGAATGCTTTTAAGGTAACTCAAAGTACAATTATG
*
44525528 ACACGACCTAATGAATGAATGCTTTTAATGTAACTCAAAGTACAATTATG
1 ACACGACCTAATGAATGAATGCTTTTAAGGTAACTCAAAGTACAATTATG
44525578 GTTTTCTCTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (50 bp):
ACACGACCTAATGAATGAATGCTTTTAAGGTAACTCAAAGTACAATTATG
Found at i:44530238 original size:22 final size:22
Alignment explanation
Indices: 44530213--44530254 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
44530203 AATACCTGGT
*
44530213 AAAAGGTATCGATACTTTTTTG
1 AAAAGGTATCGATACATTTTTG
44530235 AAAAGGTATCGATACATTTT
1 AAAAGGTATCGATACATTTT
44530255 GTAATTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (22 bp):
AAAAGGTATCGATACATTTTTG
Found at i:44530489 original size:23 final size:22
Alignment explanation
Indices: 44530447--44530491 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
44530437 TTTTTTCAAC
44530447 TTTAACTTTTATTCAGAAACAT
1 TTTAACTTTTATTCAGAAACAT
*
44530469 TTTAATTTATTATATCA-AAACAT
1 TTTAACTT-TTAT-TCAGAAACAT
44530492 ATTATCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 10 0.50
24 3 0.15
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTAACTTTTATTCAGAAACAT
Found at i:44536262 original size:37 final size:37
Alignment explanation
Indices: 44536212--44536290 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
44536202 TTATTACGAA
* *
44536212 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
44536249 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
44536286 GTCTT
1 GTCTT
44536291 TAAAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:44536487 original size:47 final size:47
Alignment explanation
Indices: 44536409--44537023 Score: 1025
Period size: 47 Copynumber: 13.1 Consensus size: 47
44536399 CCCTTCGGGA
* * * * * * * *
44536409 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
44536456 CCTGTCACATATATACACTTTCACATTCATCACATCGG-TCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCT-ATTAGGC
*
44536503 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
44536550 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
44536597 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
44536644 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
44536691 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
44536738 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
44536785 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
44536832 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
44536879 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
44536926 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
44536973 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
44537020 CTTA
1 CTTA
44537024 CTATCATTTC
Statistics
Matches: 540, Mismatches: 26, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
47 539 1.00
48 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:44544041 original size:65 final size:65
Alignment explanation
Indices: 44543827--44544123 Score: 264
Period size: 65 Copynumber: 4.6 Consensus size: 65
44543817 AATAGGCATA
* * * * * *
44543827 TTACTTTAAAGAGGTAAAGCCACTTTAAAGAATTGTCCAACATAGGTTCGCTTTAAAGAAGC-GT
1 TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAA-CTGT
44543891 G
65 G
* * * * *
44543892 ATACCTAAAAAAAGGTAAAGCCACTTTAAAGAAGTGTGGCAACACAA-GTTTAATTTAAA-AA-T
1 TTACCT-TAAAAAGGTAAAGCCACTTTAAAGAAATGT-GCAACA-AAGGTTCACTTTAAAGAACT
44543954 GTG
63 GTG
* * * *
44543957 TATTACCTTATAAAGGTAAAGCCACTTTAAAGAAATGTGTAATAAAGGTTCACTTTAAAGAACTA
1 --TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAACTG
44544022 TG
64 TG
* * ** * *
44544024 TTACCTTAAAAAGGTAAATCCACTTTAAAGAAGTGTATAACATAGGTT-ACTTTAAAGAAGTGTG
1 TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAACTGTG
* * * *
44544088 TTACATTAAAGAA-GTAAAGTCATTTTAAAAAAATGT
1 TTACCTTAAA-AAGGTAAAGCCACTTTAAAGAAATGT
44544124 TAAAGTTCGC
Statistics
Matches: 189, Mismatches: 33, Indels: 21
0.78 0.14 0.09
Matches are distributed among these distances:
64 43 0.23
65 65 0.34
66 58 0.31
67 22 0.12
68 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (65 bp):
TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAACTGTG
Found at i:44548084 original size:22 final size:22
Alignment explanation
Indices: 44548042--44548084 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
44548032 AATAATAAAA
* *
44548042 TAAAATTTTATATTTATTCATT
1 TAAAATTTTAAATTTAGTCATT
44548064 TAAAATATTTAAATTT-GTCAT
1 TAAAAT-TTTAAATTTAGTCAT
44548085 ACCCCTCCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (22 bp):
TAAAATTTTAAATTTAGTCATT
Found at i:44550468 original size:25 final size:23
Alignment explanation
Indices: 44550440--44550612 Score: 75
Period size: 25 Copynumber: 7.2 Consensus size: 23
44550430 GGACAGCTCT
44550440 TATACATCAGAAATTGAGCAGCATA
1 TATACATCA-AAATT-AGCAGCATA
* *
44550465 TATATATACAAAATTAGACAGCATT
1 TATACAT-CAAAATTAG-CAGCATA
* *
44550490 TATTCACCAAAATTAGGCAGCATA
1 TATACATCAAAATTA-GCAGCATA
* * * *
44550514 TATATATACCAATTTGGACAGCACT-
1 TATACAT-CAAAATTAG-CAGCA-TA
*
44550539 TATACA-CAAAATTTGACAGC--A
1 TATACATCAAAATTAG-CAGCATA
* * *
44550560 TGTACATACAAAATTGGACAGCATT
1 TATACAT-CAAAATTAG-CAGCATA
* * *
44550585 TATTCACCAAAATTGGGCAGCATA
1 TATACATCAAAATT-AGCAGCATA
44550609 TATA
1 TATA
44550613 TGTCAATTTG
Statistics
Matches: 112, Mismatches: 24, Indels: 25
0.70 0.15 0.16
Matches are distributed among these distances:
21 5 0.04
23 24 0.21
24 37 0.33
25 43 0.38
26 3 0.03
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (23 bp):
TATACATCAAAATTAGCAGCATA
Found at i:44550556 original size:23 final size:22
Alignment explanation
Indices: 44550467--44551074 Score: 281
Period size: 23 Copynumber: 26.0 Consensus size: 22
44550457 GCAGCATATA
* *
44550467 TATATACAAAATTAGACAGCATT
1 TATACACAAAATTTGACAGCA-T
* * *
44550490 TATTCACCAAAATTAGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
* * *
44550513 ATATATATACCAATTTGGACAGCACT
1 -TATACACA-AAATTT-GACAGCA-T
44550539 TATACACAAAATTTGACAGCAT
1 TATACACAAAATTTGACAGCAT
* * *
44550561 GTACATACAAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
44550585 TATTCACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
**
44550608 ATATATGTC--AATTTGGACAGCACT
1 -TATA-CACAAAATTT-GACAGCA-T
*
44550632 TATACACAAAAATTGACAGCAT
1 TATACACAAAATTTGACAGCAT
* *
44550654 GTATATACAAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
44550678 TATTCACTAAAATTGGGCAGCAT
1 TATACAC-AAAATTTGACAGCAT
* * *
44550701 ATATATATACCAATTTGGACAGCAAT
1 -TATACACA-AAATTT-GACAGC-AT
44550727 TATACACAAAATTTGACAGCAT
1 TATACACAAAATTTGACAGCAT
* *
44550749 GTATATACAAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
44550773 TATTCACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
* *
44550796 ATATATAC-CAATTTGGACAGCACT
1 -TATACACAAAATTT-GACAGCA-T
* *
44550820 TATACACAAGATTTGACTGCAT
1 TATACACAAAATTTGACAGCAT
* *
44550842 GTATATACAAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
44550866 TATTCACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
* * * *
44550889 ATATATAC-CAATTTGGGCAACACT
1 -TATACACAAAATTT-GACAGCA-T
* *
44550913 TATACACAAATTTTGACAGTAT
1 TATACACAAAATTTGACAGCAT
* * *
44550935 GTATATACGAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
44550959 TATTCACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
* *
44550982 ATATATAC-CAATTTGGACAGCACT
1 -TATACACAAAATTT-GACAGCA-T
44551006 TATACACAAAATTTGACAGCAT
1 TATACACAAAATTTGACAGCAT
* * *
44551028 GTATATACGAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
44551052 TATTCACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
44551075 AAATACAACA
Statistics
Matches: 443, Mismatches: 97, Indels: 90
0.70 0.15 0.14
Matches are distributed among these distances:
22 24 0.05
23 229 0.52
24 164 0.37
25 23 0.05
26 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (22 bp):
TATACACAAAATTTGACAGCAT
Found at i:44551093 original size:186 final size:188
Alignment explanation
Indices: 44550426--44551075 Score: 1072
Period size: 188 Copynumber: 3.4 Consensus size: 188
44550416 AATCTACCCT
* * *
44550426 ATTTGGACAGCTCTTATACATCAGAAA-TTGAGCAGCATATATATATACAAAATTAGACAGCATT
1 ATTTGGACAGCACTTATACA-CA-AAATTTGA-CAGC--ATGTATATACAAAATTGGACAGCATT
*
44550490 TATTCACCAAAATTAGGCAGCATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGA
61 TATTCACCAAAATTGGGCAGCATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGA
* **
44550555 CAGCATGTACATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATGTCA
126 CAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCA
*
44550618 ATTTGGACAGCACTTATACACAAAAATTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
1 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
* *
44550683 ACTAAAATTGGGCAGCATATATATATACCAATTTGGACAGCAATTATACACAAAATTTGACAGCA
66 ACCAAAATTGGGCAGCATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCA
44550748 TGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCA
131 TGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCA
* *
44550806 ATTTGGACAGCACTTATACACAAGATTTGACTGCATGTATATACAAAATTGGACAGCATTTATTC
1 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
* * * *
44550871 ACCAAAATTGGGCAGC--ATATATATACCAATTTGGGCAACACTTATACACAAATTTTGACAGTA
66 ACCAAAATTGGGCAGCATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCA
*
44550934 TGTATATACGAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCA
131 TGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCA
*
44550992 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACGAAATTGGACAGCATTTATTC
1 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
44551057 ACCAAAATTGGGCAGCATA
66 ACCAAAATTGGGCAGCATA
44551076 AATACAACAA
Statistics
Matches: 433, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
186 177 0.41
188 224 0.52
190 7 0.02
191 6 0.01
192 19 0.04
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (188 bp):
ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
ACCAAAATTGGGCAGCATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCA
TGTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCA
Found at i:44551096 original size:93 final size:93
Alignment explanation
Indices: 44550426--44551075 Score: 1050
Period size: 93 Copynumber: 6.9 Consensus size: 93
44550416 AATCTACCCT
* * *
44550426 ATTTGGACAGCTCTTATACATCAGAAA-TTGAGCAGCATATATATATACAAAATTAGACAGCATT
1 ATTTGGACAGCACTTATACA-CA-AAATTTGA-CAGC--ATGTATATACAAAATTGGACAGCATT
*
44550490 TATTCACCAAAATTAGGCAGCATATATATATACCA
61 TATTCACCAAAATTGGGCAGC--ATATATATACCA
*
44550525 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTACATACAAAATTGGACAGCATTTATTC
1 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
**
44550590 ACCAAAATTGGGCAGCATATATATGTCA
66 ACCAAAATTGGGCAGCATATATATACCA
*
44550618 ATTTGGACAGCACTTATACACAAAAATTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
1 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
*
44550683 ACTAAAATTGGGCAGCATATATATATACCA
66 ACCAAAATTGGGCAGC--ATATATATACCA
*
44550713 ATTTGGACAGCAATTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
1 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
44550778 ACCAAAATTGGGCAGCATATATATACCA
66 ACCAAAATTGGGCAGCATATATATACCA
* *
44550806 ATTTGGACAGCACTTATACACAAGATTTGACTGCATGTATATACAAAATTGGACAGCATTTATTC
1 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
44550871 ACCAAAATTGGGCAGCATATATATACCA
66 ACCAAAATTGGGCAGCATATATATACCA
* * * * *
44550899 ATTTGGGCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTC
1 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
44550964 ACCAAAATTGGGCAGCATATATATACCA
66 ACCAAAATTGGGCAGCATATATATACCA
*
44550992 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACGAAATTGGACAGCATTTATTC
1 ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
44551057 ACCAAAATTGGGCAGCATA
66 ACCAAAATTGGGCAGCATA
44551076 AATACAACAA
Statistics
Matches: 519, Mismatches: 29, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
93 356 0.69
95 131 0.25
97 7 0.01
98 6 0.01
99 19 0.04
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (93 bp):
ATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTC
ACCAAAATTGGGCAGCATATATATACCA
Found at i:44551879 original size:28 final size:28
Alignment explanation
Indices: 44551824--44551921 Score: 106
Period size: 28 Copynumber: 3.5 Consensus size: 28
44551814 TTTAATAAGT
** * *
44551824 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
44551852 TCGCACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* * **
44551880 TCACACATTTAGCCCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
44551908 TCGCACACTCAGTG
1 TCGCACACTTAGTG
44551922 TCGAAAGTCA
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.32, C:0.30, G:0.10, T:0.29
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:44557845 original size:23 final size:23
Alignment explanation
Indices: 44557778--44558360 Score: 476
Period size: 23 Copynumber: 25.1 Consensus size: 23
44557768 AGCAGCATAT
44557778 ATATATATACAAAATTGGACAGC
1 ATATATATACAAAATTGGACAGC
* * *
44557801 ATTTATACACCAAAATTTGACAGC
1 ATATATATA-CAAAATTGGACAGC
* *
44557825 ATGTATATACAAAATTGGACAAC
1 ATATATATACAAAATTGGACAGC
* *
44557848 ATTTAT-TCACCAAAATTCGG-CAGT
1 ATATATAT-A-CAAAATT-GGACAGC
* *
44557872 ATATATATACCAATTTGGACAGC
1 ATATATATACAAAATTGGACAGC
* *
44557895 ACT-TATACACAAAATTTGACAGC
1 A-TATATATACAAAATTGGACAGC
*
44557918 ATGTATATACAAAATTGGACAG-
1 ATATATATACAAAATTGGACAGC
* *
44557940 ATTTAT-TCACCAAAATTGGGCAGC
1 ATATATAT-A-CAAAATTGGACAGC
* * *
44557964 ATATATATGCCAATTTGGACAGC
1 ATATATATACAAAATTGGACAGC
*
44557987 ACT-TATACACAAAAATT-GACAGC
1 A-TATATATAC-AAAATTGGACAGC
*
44558010 ATGTATATACAAAATTGGACAGC
1 ATATATATACAAAATTGGACAGC
* *
44558033 ATTTAT-TCACCAAAATTGGGCAGC
1 ATATATAT-A-CAAAATTGGACAGC
* *
44558057 ATATATATACCAATTTGGACAGC
1 ATATATATACAAAATTGGACAGC
* *
44558080 A-ATTATACACAAAATTTGACAGC
1 ATA-TATATACAAAATTGGACAGC
*
44558103 ATGTATATACAAAATTGGACAGC
1 ATATATATACAAAATTGGACAGC
* *
44558126 ATTTAT-TCACCAAAATTGGGCAGC
1 ATATATAT-A-CAAAATTGGACAGC
* *
44558150 ATATATATACCAATTTGGACAGC
1 ATATATATACAAAATTGGACAGC
* *
44558173 ACT-TATACACAAAATTTGACAGC
1 A-TATATATACAAAATTGGACAGC
*
44558196 ATGTATATACAAAATTGGACAGC
1 ATATATATACAAAATTGGACAGC
*
44558219 ATATAT-TCACTAAAATTGGGCAGC
1 ATATATAT-AC-AAAATTGGACAGC
* *
44558243 ATATATATACCAATTTGGACAGC
1 ATATATATACAAAATTGGACAGC
* *
44558266 ACT-TATACACAAAATTTGACAGC
1 A-TATATATACAAAATTGGACAGC
* *
44558289 ATGTATATACGAAATTGGACAGC
1 ATATATATACAAAATTGGACAGC
* *
44558312 ATTTAT-TCACCAAAATTGGGCAGC
1 ATATATAT-A-CAAAATTGGACAGC
* *
44558336 ATAAATACTAC-AAATTGGGCAGC
1 ATATATA-TACAAAATTGGACAGC
44558359 AT
1 AT
44558361 TTAAGCATAA
Statistics
Matches: 451, Mismatches: 74, Indels: 70
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.00
22 24 0.05
23 294 0.65
24 123 0.27
25 8 0.02
26 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (23 bp):
ATATATATACAAAATTGGACAGC
Found at i:44558359 original size:93 final size:93
Alignment explanation
Indices: 44557778--44558338 Score: 998
Period size: 93 Copynumber: 6.0 Consensus size: 93
44557768 AGCAGCATAT
* * *
44557778 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATGTATATACAAAATTGG
1 ATATATATACCAATTTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATACAAAATTGG
* * *
44557843 ACAACATTTATTCACCAAAATTCGGCAGT
65 ACAGCATTTATTCACCAAAATTGGGCAGC
44557872 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
1 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
44557937 CAG-ATTTATTCACCAAAATTGGGCAGC
66 CAGCATTTATTCACCAAAATTGGGCAGC
* *
44557964 ATATATATGCCAATTTGGACAGCACTTATACACAAAAATTGACAGCATGTATATACAAAATTGGA
1 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
44558029 CAGCATTTATTCACCAAAATTGGGCAGC
66 CAGCATTTATTCACCAAAATTGGGCAGC
*
44558057 ATATATATACCAATTTGGACAGCAATTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
1 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
44558122 CAGCATTTATTCACCAAAATTGGGCAGC
66 CAGCATTTATTCACCAAAATTGGGCAGC
44558150 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
1 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
* *
44558215 CAGCATATATTCACTAAAATTGGGCAGC
66 CAGCATTTATTCACCAAAATTGGGCAGC
*
44558243 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACGAAATTGGA
1 ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
44558308 CAGCATTTATTCACCAAAATTGGGCAGC
66 CAGCATTTATTCACCAAAATTGGGCAGC
44558336 ATA
1 ATA
44558339 AATACTACAA
Statistics
Matches: 449, Mismatches: 17, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
92 88 0.20
93 332 0.74
94 29 0.06
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (93 bp):
ATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGA
CAGCATTTATTCACCAAAATTGGGCAGC
Found at i:44559117 original size:28 final size:28
Alignment explanation
Indices: 44559085--44559207 Score: 174
Period size: 28 Copynumber: 4.4 Consensus size: 28
44559075 AATAAGTTCA
** * *
44559085 CACACTTAGTGCTCAATAATCAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
*
44559113 CACACTTAGTGCTTTACCATTAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
* *
44559141 CACACTTAGCGCTTTACATTTAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
*
44559169 CACACTTAGTGCATTACAATTAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
44559197 CACACTTAGTG
1 CACACTTAGTG
44559208 TCGAAAGTCA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 84 1.00
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.29
Consensus pattern (28 bp):
CACACTTAGTGCTTTACAATTAAACTCG
Found at i:44559992 original size:50 final size:50
Alignment explanation
Indices: 44559917--44560049 Score: 185
Period size: 50 Copynumber: 2.7 Consensus size: 50
44559907 GTTACAAAAT
* * *
44559917 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAA
* * *
44559967 GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAA
* * *
44560017 CTCCCATGTAAGACCATATCTGGGATATGGCAT
1 GTCCCATGTAAGACCATGTCTGGGACATGGCAT
44560050 TTGCAGTACA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAA
Found at i:44560332 original size:16 final size:16
Alignment explanation
Indices: 44560311--44560341 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44560301 GTTATTTAAG
44560311 CAAGTAAGTAAGTAAA
1 CAAGTAAGTAAGTAAA
*
44560327 CAAGTAAGTGAGTAA
1 CAAGTAAGTAAGTAA
44560342 GTAAAGAAGA
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:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
CAAGTAAGTAAGTAAA
Found at i:44560355 original size:20 final size:20
Alignment explanation
Indices: 44560312--44560357 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
44560302 TTATTTAAGC
*
44560312 AAGTAAGTAAGTAAACAAGT
1 AAGTAAGTAAGTAAACAAGA
* *
44560332 AAGTGAGTAAGTAAAGAAGA
1 AAGTAAGTAAGTAAACAAGA
44560352 AAGTAA
1 AAGTAA
44560358 AGATCCTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGTAAGTAAGTAAACAAGA
Found at i:44568699 original size:23 final size:23
Alignment explanation
Indices: 44568673--44568717 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
44568663 AGTTTTAAAA
44568673 TATTGTTAAAAACATTCTAAATT
1 TATTGTTAAAAACATTCTAAATT
*
44568696 TATTGTTAAAACCATTCTAAAT
1 TATTGTTAAAAACATTCTAAAT
44568718 CGATTGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (23 bp):
TATTGTTAAAAACATTCTAAATT
Found at i:44568723 original size:23 final size:23
Alignment explanation
Indices: 44568674--44568723 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
44568664 GTTTTAAAAT
**
44568674 ATTGTTAAAAACATTCTAAATTT
1 ATTGTTAAAAACATTCTAAATCG
*
44568697 ATTGTTAAAACCATTCTAAATCG
1 ATTGTTAAAAACATTCTAAATCG
44568720 ATTG
1 ATTG
44568724 AAATGTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (23 bp):
ATTGTTAAAAACATTCTAAATCG
Found at i:44595036 original size:367 final size:366
Alignment explanation
Indices: 44594363--44595457 Score: 1913
Period size: 367 Copynumber: 3.0 Consensus size: 366
44594353 GTTGATAATG
* * * *
44594363 GAGAGTTACCGGGTTTACGAGGCAGCTGAGAGTAGAAGGAAAGTTCCTCTAACTCTTAGGTTTTT
1 GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAGGTCCTCTGACTCTTAGGTTTTT
*
44594428 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTTAGTGGCTCC
66 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
* *
44594493 AAAATGGTACCGTATTATCATCTGATCCGCGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
131 AAAACGGTGCCGTATTATCATCTGATCCGCGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
*
44594558 TCCAACACTTGGGTATATTGCACGAAATGTCCTTCAGATCTTACAGGGTTTTTAAATCGGTCCTC
196 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATC-GTCCTC
*
44594623 TTTTTTTCTTTTTTTAATTTTTTACCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTA
260 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTA
44594688 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
325 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
* *
44594730 GAGAGTTACCGGGTTTGTGAGGCGGCTGAGAGTAGAAGGAAAGGTCCTCTGACTCTTAAGTTTTT
1 GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAGGTCCTCTGACTCTTAGGTTTTT
* * *
44594795 AGGGTTTTAAGAGGCATTTATAAGTGTTTAAAACATCACCGTTTGGGGCTAGATTCAATGGCTCC
66 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
* * *
44594860 AAAACGGTGCCGTATTATTATCTGATCCGCGCGGTGACCCGACCTGGGAAAGGATCCACGCGTTT
131 AAAACGGTGCCGTATTATCATCTGATCCGCGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
*
44594925 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTTAGATCTTACAGGGTTTTTAAATCTGTCCTC
196 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATC-GTCCTC
*
44594990 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCTG-TGTCACT
260 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCT-TCACT
*
44595054 ACGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAT
324 ACGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
* *
44595097 GAAAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAATGTCCTCTGACTCTTAGGTTTTT
1 GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAGGTCCTCTGACTCTTAGGTTTTT
44595162 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
66 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
* *
44595227 AAAACGGTGCCGTATTATCATCTGATCCGCGCCGTGACCCGACCTGGGGAAGGATCCGCGTGTTT
131 AAAACGGTGCCGTATTATCATCTGATCCGCGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
44595292 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATCGATCCTC
196 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATCG-TCCTC
* *
44595357 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTTGTCCGCATCACTA
260 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTA
44595422 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTG
325 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTG
44595458 GCCCCCTCAT
Statistics
Matches: 688, Mismatches: 37, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
366 2 0.00
367 686 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (366 bp):
GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAGGTCCTCTGACTCTTAGGTTTTT
AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
AAAACGGTGCCGTATTATCATCTGATCCGCGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATCGTCCTCT
TTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTAC
GCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
Found at i:44603266 original size:26 final size:26
Alignment explanation
Indices: 44603230--44603291 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
44603220 TCCTGAAGTG
*
44603230 TTCTGAAACTGATACAGGTTATGGTA
1 TTCTGAAACTGATACAGGTTATGATA
* *
44603256 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACAGGTTATGATA
*
44603282 TTCTAAAACT
1 TTCTGAAACT
44603292 ACTATAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (26 bp):
TTCTGAAACTGATACAGGTTATGATA
Found at i:44611128 original size:21 final size:21
Alignment explanation
Indices: 44611085--44611129 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
44611075 ATGCTTTAGT
44611085 GCACCGAAGTGTCACTTTCACTA
1 GCACCGAAGTGT--CTTTCACTA
44611108 GCACCGAAGTGT-TTATCACTA
1 GCACCGAAGTGTCTT-TCACTA
44611129 G
1 G
44611130 TGCGCTGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 2 0.10
21 7 0.33
23 12 0.57
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
GCACCGAAGTGTCTTTCACTA
Found at i:44616503 original size:25 final size:25
Alignment explanation
Indices: 44616471--44616534 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
44616461 AAACCAAACC
44616471 AAGCCTTTGTGGCAAAATGTTTGGG
1 AAGCCTTTGTGGCAAAATGTTTGGG
* **
44616496 AAGCCTTTATGGTGAAATGTTTGGG
1 AAGCCTTTGTGGCAAAATGTTTGGG
44616521 AAGCCTTTGTGGCA
1 AAGCCTTTGTGGCA
44616535 GGTTACCTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.33
Consensus pattern (25 bp):
AAGCCTTTGTGGCAAAATGTTTGGG
Found at i:44619905 original size:33 final size:33
Alignment explanation
Indices: 44619854--44619919 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
44619844 ACTAATAGTT
*
44619854 TGGGCCTGAGCCCTATTCAGTAACAGTACAGTG
1 TGGGCCTGAGCCCAATTCAGTAACAGTACAGTG
* * * *
44619887 TGGGCCTTAGCGCAATTCAGTATCAGTATAGTG
1 TGGGCCTGAGCCCAATTCAGTAACAGTACAGTG
44619920 CAATAATGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (33 bp):
TGGGCCTGAGCCCAATTCAGTAACAGTACAGTG
Found at i:44620052 original size:26 final size:26
Alignment explanation
Indices: 44620021--44620089 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
44620011 ACCAATAGCA
** *
44620021 CAGCAAAGCTGTTAGTAATAGTATCG
1 CAGCAAAGCTGCCAGTAACAGTATCG
* *
44620047 TAGCAAAGCTGCCAGTAACAGTATTG
1 CAGCAAAGCTGCCAGTAACAGTATCG
44620073 CAGCAAAGCTGCCAGTA
1 CAGCAAAGCTGCCAGTA
44620090 TAGTATACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTATCG
Found at i:44622499 original size:38 final size:38
Alignment explanation
Indices: 44622448--44622525 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
44622438 TATCGAAACG
44622448 AGATAAAATAAGATTGCTTTCATAAAGAGTATACAATA
1 AGATAAAATAAGATTGCTTTCATAAAGAGTATACAATA
*
44622486 AGATAAAATAAGATTGCTTTCGTAAAGAGTATACAATA
1 AGATAAAATAAGATTGCTTTCATAAAGAGTATACAATA
44622524 AG
1 AG
44622526 GTGTTTTCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (38 bp):
AGATAAAATAAGATTGCTTTCATAAAGAGTATACAATA
Found at i:44622967 original size:13 final size:13
Alignment explanation
Indices: 44622949--44622973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44622939 TTCAATGGGT
44622949 AATTGAACTTGAA
1 AATTGAACTTGAA
44622962 AATTGAACTTGA
1 AATTGAACTTGA
44622974 GATCGTCAAT
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:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:44623382 original size:20 final size:19
Alignment explanation
Indices: 44623357--44623407 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
44623347 TAATTTTATT
*
44623357 TTATTAATTTAATATTAAAG
1 TTATTAATTTAATA-TAAAA
44623377 TTATTATATTT-ATATAAAA
1 TTATTA-ATTTAATATAAAA
44623396 TT-TTAATTTAAT
1 TTATTAATTTAAT
44623408 GTTTATCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.14
18 5 0.18
19 6 0.21
20 9 0.32
21 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATTAATTTAATATAAAA
Found at i:44624465 original size:35 final size:35
Alignment explanation
Indices: 44624421--44624653 Score: 316
Period size: 35 Copynumber: 6.8 Consensus size: 35
44624411 TTCACTTGTC
* * *
44624421 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
44624456 TTCTGTTGCAGGGAATCTTTCCTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
44624489 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
44624523 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
44624558 TTTTGTTGCAGGGAATCTTTCCTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
44624591 -TTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
44624625 TTTTGTTGCAGGGAATCTCTCCTGTTCAC
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC
44624654 ATCATTTCTT
Statistics
Matches: 175, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
32 49 0.28
33 8 0.05
34 7 0.04
35 111 0.63
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:44624530 original size:67 final size:68
Alignment explanation
Indices: 44624421--44624653 Score: 312
Period size: 67 Copynumber: 3.4 Consensus size: 68
44624411 TTCACTTGTC
* * * *
44624421 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
*
44624486 TCA
66 TTA
44624489 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTT--CA
44624553 CATTA
64 CATTA
* * * *
44624558 TTTTGTTGCAGGGAATCTTTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACG
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCAC-
44624620 GATTA
65 -ATTA
*
44624625 TTTTGTTGCAGGGAATCTCTCCTGTTCAC
1 TTTTCTTGCAGGGAATCTCTCCTGTTCAC
44624654 ATCATTTCTT
Statistics
Matches: 149, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
65 3 0.02
67 111 0.74
68 4 0.03
69 6 0.04
70 25 0.17
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
TTA
Found at i:44624602 original size:102 final size:102
Alignment explanation
Indices: 44624421--44624659 Score: 415
Period size: 102 Copynumber: 2.3 Consensus size: 102
44624411 TTCACTTGTC
* * * *
44624421 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
44624486 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
44624523 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
*
44624588 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
44624625 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACA-CATT
44624660 TCTTTTTGGA
Statistics
Matches: 130, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
102 126 0.97
103 4 0.03
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:44627497 original size:20 final size:22
Alignment explanation
Indices: 44627460--44627503 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
44627450 GAGCAAATTG
44627460 TTGATTCTATTTCTTTTTG-AT
1 TTGATTCTATTTCTTTTTGTAT
44627481 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
44627502 TT
1 TT
44627504 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:44632415 original size:28 final size:27
Alignment explanation
Indices: 44632369--44632423 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
44632359 TATATTTGTT
* *
44632369 TTATAATTGTTTATAATATTATGTAATG
1 TTATAATTGTATATAATA-TATGAAATG
44632397 TTATAATTGTGATAT-ATATATGAAATG
1 TTATAATTGT-ATATAATATATGAAATG
44632424 ATCCACAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 13 0.54
29 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (27 bp):
TTATAATTGTATATAATATATGAAATG
Found at i:44637419 original size:7 final size:7
Alignment explanation
Indices: 44637407--44637431 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44637397 AATAAATTTA
44637407 ATTTCAC
1 ATTTCAC
44637414 ATTTCAC
1 ATTTCAC
44637421 ATTTCAC
1 ATTTCAC
44637428 ATTT
1 ATTT
44637432 AACTATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTCAC
Found at i:44644985 original size:23 final size:22
Alignment explanation
Indices: 44644938--44644985 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
44644928 TTCTAAGTCA
*
44644938 ATATTTAATTCAATTCCACAGTT
1 ATATTTAATTCAATT-CACACTT
44644961 ATATTTATTATTCAATT-ACACTT
1 ATATTTA--ATTCAATTCACACTT
44644984 AT
1 AT
44644986 TCAATTTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATTTAATTCAATTCACACTT
Found at i:44645191 original size:51 final size:50
Alignment explanation
Indices: 44645126--44645308 Score: 154
Period size: 51 Copynumber: 3.6 Consensus size: 50
44645116 TGGTTCACAA
* *
44645126 AGTAGACTGCACATAGTACTACACATGTGACCCTTACCATCTGATACACGT
1 AGTAGCCTGCACATAGTACTACACACGTGACCC-TACCATCTGATACACGT
* *** * * * * *
44645177 AGTAGCCTGTACATAGTACTACACACGTGATCGAAACTATCCGGTACGCAT
1 AGTAGCCTGCACATAGTACTACACACGTGA-CCCTACCATCTGATACACGT
* ** * * *
44645228 AGTAGCCTGCATATAGTACTACACGTGCGA-CCTATCAT-TCCAGTACACGT
1 AGTAGCCTGCACATAGTACTACACACGTGACCCTACCATCT-GA-TACACGT
*
44645278 AGTAGCCTACACATAGTACTACACACGTGAC
1 AGTAGCCTGCACATAGTACTACACACGTGAC
44645309 TAGCACTTTC
Statistics
Matches: 97, Mismatches: 31, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
49 3 0.03
50 30 0.31
51 63 0.65
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
AGTAGCCTGCACATAGTACTACACACGTGACCCTACCATCTGATACACGT
Found at i:44648000 original size:42 final size:42
Alignment explanation
Indices: 44647920--44648001 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
44647910 CGTTTTCTCT
* * **
44647920 ATGCCATAGTCCAACTATGGTTTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
44647962 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
44648002 CACACCGACG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:44650216 original size:11 final size:11
Alignment explanation
Indices: 44650200--44650225 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
44650190 TTGAAAACAT
44650200 AAAAAGTACAA
1 AAAAAGTACAA
44650211 AAAAAGTACAA
1 AAAAAGTACAA
44650222 AAAA
1 AAAA
44650226 TACATGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAGTACAA
Found at i:44653365 original size:12 final size:12
Alignment explanation
Indices: 44653348--44653444 Score: 57
Period size: 12 Copynumber: 8.4 Consensus size: 12
44653338 ATTTTAATAG
44653348 ATTTAATATTAA-
1 ATTTAAT-TTAAT
44653360 ATTTAATTTAAT
1 ATTTAATTTAAT
*
44653372 ATTT-CTCTTAAT
1 ATTTAAT-TTAAT
*
44653384 A-AT-ATTT--T
1 ATTTAATTTAAT
44653392 A-TTAATTTAAT
1 ATTTAATTTAAT
* * *
44653403 ATTAAATTGATT
1 ATTTAATTTAAT
44653415 ATCTTAATATTAA-
1 AT-TTAAT-TTAAT
44653428 ATTTAATTTAAT
1 ATTTAATTTAAT
44653440 ATTTA
1 ATTTA
44653445 TCTTGATAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
8 3 0.05
9 4 0.06
10 2 0.03
11 13 0.20
12 36 0.55
13 6 0.09
14 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (12 bp):
ATTTAATTTAAT
Found at i:44653388 original size:32 final size:32
Alignment explanation
Indices: 44653351--44653474 Score: 101
Period size: 32 Copynumber: 3.8 Consensus size: 32
44653341 TTAATAGATT
*
44653351 TAATATTAAATTTAATTTAATATTTCTCTTAA
1 TAATATTAAATTTAATTTAATATTTATCTTAA
* **
44653383 TAATATTTTATTAATTTAATATTAA-ATTGAT-TATCT
1 TAATA--TTA--AATTTAAT-TTAATATTTATCT-TAA
*
44653419 TAATATTAAATTTAATTTAATATTTATCTTGA
1 TAATATTAAATTTAATTTAATATTTATCTTAA
* *
44653451 TAAATATTATA-TTAATTAAATATT
1 T-AATATTAAATTTAATTTAATATT
44653475 AAAGTGATTA
Statistics
Matches: 74, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
31 4 0.05
32 32 0.43
33 9 0.12
34 6 0.08
35 1 0.01
36 18 0.24
37 4 0.05
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (32 bp):
TAATATTAAATTTAATTTAATATTTATCTTAA
Found at i:44653422 original size:68 final size:69
Alignment explanation
Indices: 44653350--44653484 Score: 218
Period size: 68 Copynumber: 2.0 Consensus size: 69
44653340 TTTAATAGAT
* * * *
44653350 TTAATATTAAATTTAATTTAATATTTCTCTTAAT-AATATTTTATTAATTTAATATTAAATTGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTAAATATTAAAGTGAT
44653414 TATC
66 TATC
*
44653418 TTAATATTAAATTTAATTTAATATTTATCTTGATAAATATTATATTAATTAAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTAAATATTAAAGTGAT
44653483 TA
66 TA
44653485 AGTTTAATCA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
68 32 0.52
69 29 0.48
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (69 bp):
TTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTAAATATTAAAGTGAT
TATC
Found at i:44653470 original size:16 final size:16
Alignment explanation
Indices: 44653420--44653475 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
44653410 TGATTATCTT
* *
44653420 AATATTAAATTTAATTT
1 AATATTATA-TTAATTA
* *
44653437 AATATTTATCTTGA-TA
1 AATA-TTATATTAATTA
44653453 AATATTATATTAATTA
1 AATATTATATTAATTA
44653469 AATATTA
1 AATATTA
44653476 AAGTGATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 7 0.23
16 14 0.45
17 7 0.23
18 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
AATATTATATTAATTA
Found at i:44654386 original size:13 final size:13
Alignment explanation
Indices: 44654370--44654404 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
44654360 TCTTATTATT
44654370 TTATTATTTTTTA
1 TTATTATTTTTTA
44654383 TTATTAATTTTTTA
1 TTATT-ATTTTTTA
*
44654397 TAATTATT
1 TTATTATT
44654405 AAGTATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:44666003 original size:17 final size:17
Alignment explanation
Indices: 44665981--44666017 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
44665971 GATAAGTATC
**
44665981 CATTGTCATTGCATTTT
1 CATTGTCATTAAATTTT
44665998 CATTGTCATTAAATTTT
1 CATTGTCATTAAATTTT
44666015 CAT
1 CAT
44666018 GTTAGTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.51
Consensus pattern (17 bp):
CATTGTCATTAAATTTT
Found at i:44668629 original size:15 final size:15
Alignment explanation
Indices: 44668611--44668642 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44668601 GCTCCAAATT
44668611 TTGGGCCTAGAAGAA
1 TTGGGCCTAGAAGAA
44668626 TTGGGCCTAGAAGAA
1 TTGGGCCTAGAAGAA
44668641 TT
1 TT
44668643 TAGATAGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.25
Consensus pattern (15 bp):
TTGGGCCTAGAAGAA
Found at i:44670629 original size:27 final size:27
Alignment explanation
Indices: 44670488--44670631 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
44670478 ACTTACAAAC
* *
44670488 TAAAATGACCAAAATACCCCTATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* * *
44670515 TAAAATAATCGAAATACCCCCATAGAG
1 TAAAATGACCGAAATACCCCCATAGGG
* * *
44670542 TAAAATAACCAAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
*
44670569 TAAAATGACCGAAATACCCCCATCGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* *
44670596 TAGAATGACCGTAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
*
44670623 TTAAATGAC
1 TAAAATGAC
44670632 TAAAATTGAT
Statistics
Matches: 99, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:44672241 original size:32 final size:32
Alignment explanation
Indices: 44672201--44672354 Score: 166
Period size: 32 Copynumber: 4.8 Consensus size: 32
44672191 ACGATGCTAT
* * **
44672201 TGATGGCTTTGTACCGATCATATTACCATTTT
1 TGATGGCTTTGTGCCAATCATATTACCATTAC
* * *
44672233 TGATGGCTTTGTGTCAATTATATTACCGTTAC
1 TGATGGCTTTGTGCCAATCATATTACCATTAC
44672265 TGATGGCTTTGTGCCAATCATATTACCATTAC
1 TGATGGCTTTGTGCCAATCATATTACCATTAC
* * * * * * *
44672297 TGATGGCTGTGAGTCGATTATATCACTC-CTAC
1 TGATGGCTTTGTGCCAATCATATTAC-CATTAC
44672329 TGATGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGTGCCAATCATATTAC
44672355 TGTACTTATG
Statistics
Matches: 98, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
32 97 0.99
33 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (32 bp):
TGATGGCTTTGTGCCAATCATATTACCATTAC
Found at i:44672302 original size:64 final size:64
Alignment explanation
Indices: 44672201--44672354 Score: 211
Period size: 64 Copynumber: 2.4 Consensus size: 64
44672191 ACGATGCTAT
* * ** * * * *
44672201 TGATGGCTTTGTACCGATCATATTACCATTTTTGATGGCTTTGTGTCAATTATATTAC-CGTTAC
1 TGATGGCTTTGTGCCAATCATATTACCATTACTGATGGCTGTGAGTCAATTATATCACTC-CTAC
*
44672265 TGATGGCTTTGTGCCAATCATATTACCATTACTGATGGCTGTGAGTCGATTATATCACTCCTAC
1 TGATGGCTTTGTGCCAATCATATTACCATTACTGATGGCTGTGAGTCAATTATATCACTCCTAC
44672329 TGATGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGTGCCAATCATATTAC
44672355 TGTACTTATG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 79 0.99
65 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (64 bp):
TGATGGCTTTGTGCCAATCATATTACCATTACTGATGGCTGTGAGTCAATTATATCACTCCTAC
Found at i:44672385 original size:22 final size:22
Alignment explanation
Indices: 44672360--44672421 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
44672350 ATTACTGTAC
44672360 TTATGGCTTGTAGCCATTC-TGT
1 TTATGGCTT-TAGCCATTCTTGT
* *
44672382 TTATAGCTTATAGCTA-TCTTGT
1 TTATGGCTT-TAGCCATTCTTGT
*
44672404 TTACGGCTCTTAGCCATT
1 TTATGGCT-TTAGCCATT
44672422 TTGGTTACTG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.45
Consensus pattern (22 bp):
TTATGGCTTTAGCCATTCTTGT
Found at i:44681318 original size:18 final size:18
Alignment explanation
Indices: 44681295--44681339 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
44681285 ATTTTGAAAA
*
44681295 TGGTCAAAATTAT-GTTCC
1 TGGTCAAAATTATAATT-C
44681313 TGGTCAAAATTATAATTC
1 TGGTCAAAATTATAATTC
44681331 TGGTCAAAA
1 TGGTCAAAA
44681340 GTGGCTTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
TGGTCAAAATTATAATTC
Found at i:44681574 original size:69 final size:69
Alignment explanation
Indices: 44681458--44681594 Score: 211
Period size: 69 Copynumber: 2.0 Consensus size: 69
44681448 GCGCCGAACA
* * * *
44681458 TATAGGCCTCAAGAGTATGGGCCGCATAATGGGATTGATGGTGCTGTTGGGCCGAATGGTGGTGT
1 TATAGGCCTCAAAAGTATGGGCCACATAATGGGATTGATGGTACTGTTGGGCCGAATGGTGGCGT
44681523 TGGT
66 TGGT
* * *
44681527 TATAGGCCTCAAAATTATGGGCCACATGATGGGATTGGTGGTACTGTTGGGCCGAATGGTGGCGT
1 TATAGGCCTCAAAAGTATGGGCCACATAATGGGATTGATGGTACTGTTGGGCCGAATGGTGGCGT
44681592 TGG
66 TGG
44681595 GCCGAAGGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.20, C:0.14, G:0.38, T:0.28
Consensus pattern (69 bp):
TATAGGCCTCAAAAGTATGGGCCACATAATGGGATTGATGGTACTGTTGGGCCGAATGGTGGCGT
TGGT
Found at i:44681588 original size:21 final size:20
Alignment explanation
Indices: 44681562--44681600 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
44681552 ATGATGGGAT
44681562 TGGTGGTACTGTTGGGCCGAA
1 TGGTGGTAC-GTTGGGCCGAA
44681583 TGGTGG--CGTTGGGCCGAA
1 TGGTGGTACGTTGGGCCGAA
44681601 GGATGGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 11 0.61
19 1 0.06
21 6 0.33
ACGTcount: A:0.13, C:0.15, G:0.46, T:0.26
Consensus pattern (20 bp):
TGGTGGTACGTTGGGCCGAA
Found at i:44681612 original size:18 final size:18
Alignment explanation
Indices: 44681573--44681615 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
44681563 GGTGGTACTG
*
44681573 TTGGGCCGAATGGTGGCG
1 TTGGGCCGAATGGTGGCA
*
44681591 TTGGGCCGAA-GGATGGTA
1 TTGGGCCGAATGG-TGGCA
44681609 TTGGGCC
1 TTGGGCC
44681616 AAATATTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.14, C:0.16, G:0.47, T:0.23
Consensus pattern (18 bp):
TTGGGCCGAATGGTGGCA
Found at i:44687322 original size:9 final size:9
Alignment explanation
Indices: 44687310--44687338 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
44687300 AAAGAAGAAG
44687310 AGAAAATGA
1 AGAAAATGA
44687319 AGAAAATG-
1 AGAAAATGA
44687327 AGAAAATGA
1 AGAAAATGA
44687336 AGA
1 AGA
44687339 TGCCGACCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (9 bp):
AGAAAATGA
Found at i:44689256 original size:8 final size:8
Alignment explanation
Indices: 44689243--44689282 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
44689233 CAAATATTTA
44689243 AAAATTGT
1 AAAATTGT
44689251 AAAATTGT
1 AAAATTGT
*
44689259 AAAATTACT
1 AAAATT-GT
44689268 AAAAATTGT
1 -AAAATTGT
44689277 AAAATT
1 AAAATT
44689283 ATTAAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 20 0.71
9 2 0.07
10 6 0.21
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (8 bp):
AAAATTGT
Found at i:44689272 original size:18 final size:18
Alignment explanation
Indices: 44689251--44689290 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
44689241 TAAAAATTGT
44689251 AAAATTGTAAAATTACTA
1 AAAATTGTAAAATTACTA
*
44689269 AAAATTGTAAAATTATTA
1 AAAATTGTAAAATTACTA
44689287 AAAA
1 AAAA
44689291 CATTAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAATTGTAAAATTACTA
Found at i:44691882 original size:24 final size:23
Alignment explanation
Indices: 44691855--44691971 Score: 90
Period size: 23 Copynumber: 4.9 Consensus size: 23
44691845 TTACCAATTT
*
44691855 TTTTTTATTAAGTTTTGCATCAAG
1 TTTTTTATCAAGTTTT-CATCAAG
* *
44691879 TTTTTTTTTAAGCTTTTCATCAAG
1 TTTTTTATCAAG-TTTTCATCAAG
* * *
44691903 TCTTTCATCAAGTGTTTTTCATAAAG
1 TTTTTTATCAA--G-TTTTCATCAAG
* * *
44691929 TTTTTAAGCAAGTTTCCATCAAG
1 TTTTTTATCAAGTTTTCATCAAG
* *
44691952 TTTTTAATCAAGCTTTCATC
1 TTTTTTATCAAGTTTTCATC
44691972 TTCTAAAATA
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
23 26 0.35
24 26 0.35
25 4 0.05
26 19 0.25
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.50
Consensus pattern (23 bp):
TTTTTTATCAAGTTTTCATCAAG
Found at i:44691908 original size:12 final size:12
Alignment explanation
Indices: 44691864--44691963 Score: 76
Period size: 12 Copynumber: 8.2 Consensus size: 12
44691854 TTTTTTTATT
*
44691864 AAGTTTTGCATC
1 AAGTTTTTCATC
** *
44691876 AAGTTTTTTTTT
1 AAGTTTTTCATC
*
44691888 AAGCTTTTCATC
1 AAGTTTTTCATC
*
44691900 AAGTCTTTCATC
1 AAGTTTTTCATC
*
44691912 AAGTGTTTTTCATA
1 AA--GTTTTTCATC
* *
44691926 AAGTTTTTAAGC
1 AAGTTTTTCATC
*
44691938 AAG-TTTCCATC
1 AAGTTTTTCATC
*
44691949 AAGTTTTTAATC
1 AAGTTTTTCATC
44691961 AAG
1 AAG
44691964 CTTTCATCTT
Statistics
Matches: 65, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
11 8 0.12
12 47 0.72
14 10 0.15
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (12 bp):
AAGTTTTTCATC
Found at i:44691940 original size:26 final size:26
Alignment explanation
Indices: 44691892--44691941 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
44691882 TTTTTTAAGC
* * *
44691892 TTTTCATCAAGTCTTTCATCAAGTGT
1 TTTTCATAAAGTCTTTAAGCAAGTGT
*
44691918 TTTTCATAAAGTTTTTAAGCAAGT
1 TTTTCATAAAGTCTTTAAGCAAGT
44691942 TTCCATCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (26 bp):
TTTTCATAAAGTCTTTAAGCAAGTGT
Found at i:44699113 original size:21 final size:21
Alignment explanation
Indices: 44699064--44699116 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
44699054 ATACCTTAAC
*
44699064 CTTTCACCCATCAAATCCTAAT
1 CTTTCACCTATCAAATCC-AAT
*
44699086 CTTTCACCTATCACATCC-AT
1 CTTTCACCTATCAAATCCAAT
44699106 CTTTTCACCTA
1 C-TTTCACCTA
44699117 AAAAACTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 9 0.32
22 16 0.57
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (21 bp):
CTTTCACCTATCAAATCCAAT
Found at i:44702247 original size:23 final size:22
Alignment explanation
Indices: 44702211--44702255 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
44702201 AATTTTTTTA
44702211 TTAAGTTTTGCATCAAGTTCTTT
1 TTAAGTTTTGCATCAAG-TCTTT
44702234 TTAAGCTTTT-CATCAAGTCTTT
1 TTAAG-TTTTGCATCAAGTCTTT
44702256 CATCAAGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (22 bp):
TTAAGTTTTGCATCAAGTCTTT
Found at i:44702258 original size:12 final size:12
Alignment explanation
Indices: 44702213--44702311 Score: 69
Period size: 12 Copynumber: 8.2 Consensus size: 12
44702203 TTTTTTTATT
*
44702213 AAGTTTTGCATC
1 AAGTTTTTCATC
*
44702225 AAGTTCTTT--TT
1 AAGTT-TTTCATC
*
44702236 AAGCTTTTCATC
1 AAGTTTTTCATC
*
44702248 AAGTCTTTCATC
1 AAGTTTTTCATC
*
44702260 AAGTGTTTTTTATC
1 AA--GTTTTTCATC
* *
44702274 AAGTTTTTAAGC
1 AAGTTTTTCATC
*
44702286 AAG-TTTCCATC
1 AAGTTTTTCATC
*
44702297 AAGTTTTTAATC
1 AAGTTTTTCATC
44702309 AAG
1 AAG
44702312 CTTTCATCTT
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
10 3 0.05
11 13 0.20
12 38 0.58
13 2 0.03
14 10 0.15
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (12 bp):
AAGTTTTTCATC
Found at i:44702288 original size:26 final size:26
Alignment explanation
Indices: 44702240--44702289 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
44702230 CTTTTTAAGC
* *
44702240 TTTTCATCAAGTCTTTCATCAAGTGT
1 TTTTCATCAAGTCTTTAAGCAAGTGT
* *
44702266 TTTTTATCAAGTTTTTAAGCAAGT
1 TTTTCATCAAGTCTTTAAGCAAGT
44702290 TTCCATCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (26 bp):
TTTTCATCAAGTCTTTAAGCAAGTGT
Found at i:44702301 original size:23 final size:24
Alignment explanation
Indices: 44702271--44702316 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
44702261 AGTGTTTTTT
44702271 ATCAAGTTTTTAAGCAAG-TTTCC
1 ATCAAGTTTTTAAGCAAGCTTTCC
*
44702294 ATCAAGTTTTTAATCAAGCTTTC
1 ATCAAGTTTTTAAGCAAGCTTTC
44702317 ATCTTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (24 bp):
ATCAAGTTTTTAAGCAAGCTTTCC
Found at i:44711636 original size:63 final size:62
Alignment explanation
Indices: 44711554--44711758 Score: 189
Period size: 63 Copynumber: 3.3 Consensus size: 62
44711544 CACACGGGCG
* *
44711554 TGTGTCCAAGCTATGTAACTTAACGAATTTGGATTTGGGTCATACGGGCAAGCCACACAGGT
1 TGTGTCCAGGCTATGTAACTTAACGAATTTGGATTTGGGTCACACGGGCAAGCCACACAGGT
* * * ** * * *
44711616 ATGTGTCCAGGCTGTATAACTCATTGACTTTGGATTTAGGTTACACGGGCAAGCCACACAGGT
1 -TGTGTCCAGGCTATGTAACTTAACGAATTTGGATTTGGGTCACACGGGCAAGCCACACAGGT
* * * * ** * *
44711679 GTGTGTCTAGGCCATGTAAC-TCACTAACTTCAGATTTGGGTCACACAGGCAAGCCACAC-GAT
1 -TGTGTCCAGGCTATGTAACTTAACGAA-TTTGGATTTGGGTCACACGGGCAAGCCACACAGGT
*
44711741 TGTGTGCCAGGCTGTGTA
1 TGTGT-CCAGGCTATGTA
44711759 GAGGCACACA
Statistics
Matches: 110, Mismatches: 30, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
61 5 0.05
62 12 0.11
63 93 0.85
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (62 bp):
TGTGTCCAGGCTATGTAACTTAACGAATTTGGATTTGGGTCACACGGGCAAGCCACACAGGT
Found at i:44713034 original size:15 final size:16
Alignment explanation
Indices: 44713001--44713041 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
44712991 CTTTTCATTG
*
44713001 CTTAATTTTTCTAGCA
1 CTTAATTTTTCCAGCA
*
44713017 CTTAATTTTTCCA-TA
1 CTTAATTTTTCCAGCA
44713032 CTTAATTTTT
1 CTTAATTTTT
44713042 ACTTTACCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.56
Consensus pattern (16 bp):
CTTAATTTTTCCAGCA
Found at i:44713461 original size:28 final size:28
Alignment explanation
Indices: 44713430--44713519 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 28
44713420 CACTTAACCA
44713430 AATTTACACCAATAATAATTCTTATATT
1 AATTTACACCAATAATAATTCTTATATT
** * **
44713458 AATTTTA-AAAAATTA-AATT-TTATTAACCA
1 AA-TTTACACCAATAATAATTCTTA-T-A-TT
*
44713487 AAGTTACACCAATAATAATTCTTATATT
1 AATTTACACCAATAATAATTCTTATATT
44713515 AATTT
1 AATTT
44713520 TAAAAAATTA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
26 3 0.07
27 5 0.12
28 15 0.35
29 12 0.28
30 5 0.12
31 3 0.07
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.42
Consensus pattern (28 bp):
AATTTACACCAATAATAATTCTTATATT
Found at i:44713494 original size:57 final size:57
Alignment explanation
Indices: 44713423--44713536 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
44713413 AATTTACCAC
*
44713423 TTAACCAAATTTACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTA
1 TTAACCAAAGTTACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTA
44713480 TTAACCAAAGTTACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTA
1 TTAACCAAAGTTACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTA
44713537 ACATAAAGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (57 bp):
TTAACCAAAGTTACACCAATAATAATTCTTATATTAATTTTAAAAAATTAAATTTTA
Found at i:44714077 original size:40 final size:40
Alignment explanation
Indices: 44713973--44714078 Score: 101
Period size: 39 Copynumber: 2.7 Consensus size: 40
44713963 TTTGGACAAC
* * *
44713973 AAACGCAGCTAAAAATCGAGCATTAGCGGCATATTAAGGA
1 AAACGCCGCTAAAAATAGAGCATTAGCAGCATATTAAGGA
* * * **
44714013 AAACTCCGCT-AAAATAAAGAATTAGCAGCACT-TT-TTGA
1 AAACGCCGCTAAAAATAGAGCATTAGCAGCA-TATTAAGGA
44714051 GAAACGCCGCTAAAAATAGAGCATTAGC
1 -AAACGCCGCTAAAAATAGAGCATTAGC
44714079 GGCGTTTATA
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
38 2 0.04
39 27 0.52
40 23 0.44
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (40 bp):
AAACGCCGCTAAAAATAGAGCATTAGCAGCATATTAAGGA
Found at i:44714099 original size:40 final size:39
Alignment explanation
Indices: 44713973--44714106 Score: 119
Period size: 40 Copynumber: 3.4 Consensus size: 39
44713963 TTTGGACAAC
* * *
44713973 AAACGCAGCTAAAAATCGAGCATTAGCGGCATATTAAGG
1 AAACGCCGCTAAAAATAGAGCATTAGCGGCATTTTAAGG
* * * * *
44714012 AAAACTCCGCT-AAAATAAAGAATTAGCAGCACTTTT-TGAG
1 -AAACGCCGCTAAAAATAGAGCATTAGCGGCA-TTTTAAG-G
*
44714052 AAACGCCGCTAAAAATAGAGCATTAGCGGCGTTTATAAGG
1 AAACGCCGCTAAAAATAGAGCATTAGCGGCATTT-TAAGG
* *
44714092 AAGCGCCGCAAAAAA
1 AAACGCCGCTAAAAA
44714107 CCCAAGCCCA
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
39 29 0.40
40 43 0.59
41 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (39 bp):
AAACGCCGCTAAAAATAGAGCATTAGCGGCATTTTAAGG
Found at i:44714224 original size:33 final size:33
Alignment explanation
Indices: 44714182--44714246 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
44714172 GCTAATGATC
*
44714182 TGGGCTTTAGCTGCGTTTTTGAAGAAGCGCCGT
1 TGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGT
*
44714215 TGGGCTTTAGCGGCGTTTTTGAATAAGCGCCG
1 TGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCG
44714247 CTAATGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.15, C:0.18, G:0.34, T:0.32
Consensus pattern (33 bp):
TGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGT
Found at i:44714274 original size:41 final size:41
Alignment explanation
Indices: 44714214--44714458 Score: 231
Period size: 41 Copynumber: 6.0 Consensus size: 41
44714204 AGAAGCGCCG
* *
44714214 TTGGGCTTTAGCGGCGTTTTTGA-ATAAGCGCCGCTAATGAT
1 TTGGGCTTTAGCGGCGTTTTTTAGA-AAGCGCCGCTAATGCT
* *
44714255 TTGGGCTTTAGCGGTGTTTTTTAGAAAGCGCCGCTAATTCT
1 TTGGGCTTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCT
* * * *
44714296 TTGGGCTTTAGCGGCATTTTTTAGAAAGTGTCGCTATTGCT
1 TTGGGCTTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCT
* * * * *
44714337 TTGGGCTTTAGCGCCATTTTTTAGGAAGCACCGCTAATACT
1 TTGGGCTTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCT
* * ** * * * *
44714378 CTGGGCATTAGCAACGTTTTTGACGAGAGCGCCGATATTGCT
1 TTGGGCTTTAGCGGCGTTTTTTA-GAAAGCGCCGCTAATGCT
* * * * *
44714420 CTGGACTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATG
1 TTGGGCTTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATG
44714459 GTGGAAAGTT
Statistics
Matches: 166, Mismatches: 36, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
41 133 0.80
42 33 0.20
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (41 bp):
TTGGGCTTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCT
Found at i:44714640 original size:7 final size:7
Alignment explanation
Indices: 44714630--44714689 Score: 59
Period size: 7 Copynumber: 8.7 Consensus size: 7
44714620 AGAGTTTTGA
44714630 GTTTAGG
1 GTTTAGG
*
44714637 GTTTATG
1 GTTTAGG
*
44714644 GTGTA-G
1 GTTTAGG
44714650 GTTTAGG
1 GTTTAGG
*
44714657 GTTTGGG
1 GTTTAGG
*
44714664 GTTTGGG
1 GTTTAGG
*
44714671 GTTTAAG
1 GTTTAGG
*
44714678 ATTTAGG
1 GTTTAGG
44714685 GTTTA
1 GTTTA
44714690 TGTTTTAATG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
6 5 0.12
7 38 0.88
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:44714785 original size:21 final size:21
Alignment explanation
Indices: 44714761--44714801 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44714751 TAGGGCTTGA
* * *
44714761 TGTTTATGGTTTATGGTTTAG
1 TGTTAATGATTTAAGGTTTAG
44714782 TGTTAATGATTTAAGGTTTA
1 TGTTAATGATTTAAGGTTTA
44714802 CAATGTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (21 bp):
TGTTAATGATTTAAGGTTTAG
Found at i:44714833 original size:14 final size:14
Alignment explanation
Indices: 44714810--44714864 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
44714800 TACAATGTAT
*
44714810 GATTTTGGGTTTTG
1 GATTTAGGGTTTTG
*
44714824 GATTTAGGGTTTAG
1 GATTTAGGGTTTTG
* * *
44714838 GGTTTAGTGTTATG
1 GATTTAGGGTTTTG
44714852 GATTTTAGGGTTT
1 GA-TTTAGGGTTT
44714865 AATTACTTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
14 23 0.74
15 8 0.26
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.51
Consensus pattern (14 bp):
GATTTAGGGTTTTG
Found at i:44716342 original size:31 final size:31
Alignment explanation
Indices: 44716304--44716383 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
44716294 TTGGATTTTA
*
44716304 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
44716335 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
*
44716366 ATTGATTTTTGCTGCTAA
1 ATTGGTTTTTGCTGCTAA
44716384 ATCAACCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (31 bp):
ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
Found at i:44717229 original size:12 final size:12
Alignment explanation
Indices: 44717212--44717239 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44717202 GCTAGCCATG
44717212 ATGTTACTATTA
1 ATGTTACTATTA
44717224 ATGTTACTATTA
1 ATGTTACTATTA
44717236 ATGT
1 ATGT
44717240 CCTTAATCAC
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:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (12 bp):
ATGTTACTATTA
Found at i:44717372 original size:10 final size:10
Alignment explanation
Indices: 44717359--44717393 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
44717349 TTTTTTCTTT
44717359 TTTTTTTAAG
1 TTTTTTTAAG
44717369 TTTTTTTAAG
1 TTTTTTTAAG
44717379 TTTTTTTAAG
1 TTTTTTTAAG
44717389 TTTTT
1 TTTTT
44717394 CATGTGTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (10 bp):
TTTTTTTAAG
Found at i:44718644 original size:43 final size:43
Alignment explanation
Indices: 44718583--44718676 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
44718573 TTTGTGGTTA
* * * * *
44718583 TTAGCGGTGATTGTGGGTAAAGTGCCGCTAAAGATCATGTTCT
1 TTAGCGGCGATTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
* *
44718626 TTAGCGGCGTTTGTGGGTAAAGCGTCGCAAAAGAACATGATCT
1 TTAGCGGCGATTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
44718669 TTAGCGGC
1 TTAGCGGC
44718677 ATTTTTTCTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (43 bp):
TTAGCGGCGATTGTGGGTAAAGCGCCGCAAAAGAACATGATCT
Found at i:44723025 original size:41 final size:41
Alignment explanation
Indices: 44722957--44723230 Score: 390
Period size: 41 Copynumber: 6.7 Consensus size: 41
44722947 CCATTCGGGG
* ** *
44722957 CTTTAGTGGCGTTTTTTAAAAAAGCGCCGCTAATGCTCAGGGT
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTC-TGGT
*
44723000 -TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTTTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
* * ** *
44723040 CTTTAGTGGCATTTTTGGGGAAGCGCAGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
44723081 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
*
44723122 CTTTAGCGGCGTTTTTTGG-GAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTCTGGT
*
44723163 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
*
44723204 CTTTAGCGGCGTTTTTGGGAAAGCGCC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCC
44723231 ACAAAAACAA
Statistics
Matches: 210, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
40 10 0.05
41 184 0.88
42 16 0.08
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
Found at i:44723627 original size:35 final size:36
Alignment explanation
Indices: 44723571--44723654 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 36
44723561 TATTTATAGG
* * * *
44723571 TTTATGGATTATGAGTTTAGGGGTTATGGTTTACAC
1 TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
* *
44723607 TTTATGGTTTAAGA-TTTAGGGTTTAAGGGTTACAG
1 TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
44723642 TTTATGGTTTAAG
1 TTTATGGTTTAAG
44723655 GGTATAGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 30 0.71
36 12 0.29
ACGTcount: A:0.24, C:0.04, G:0.27, T:0.45
Consensus pattern (36 bp):
TTTATGGTTTAAGAGTTTAGGGGTTAAGGGTTACAC
Found at i:44723671 original size:21 final size:20
Alignment explanation
Indices: 44723618--44723701 Score: 64
Period size: 21 Copynumber: 4.1 Consensus size: 20
44723608 TTATGGTTTA
44723618 AGATTTAGGGTTTAAGGGTT
1 AGATTTAGGGTTTAAGGGTT
* *
44723638 ACAGTTTATGGTTTAAGGGTAT
1 AGA-TTTAGGGTTTAAGGGT-T
* *
44723660 AGATTAAGGG-TT-GGGGTTT
1 AGATTTAGGGTTTAAGGG-TT
* *
44723679 AAGGTTTAGGGATTAAGGGTT
1 -AGATTTAGGGTTTAAGGGTT
44723700 AG
1 AG
44723702 GGGTTGATGG
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
19 4 0.08
20 15 0.31
21 24 0.49
22 6 0.12
ACGTcount: A:0.26, C:0.01, G:0.36, T:0.37
Consensus pattern (20 bp):
AGATTTAGGGTTTAAGGGTT
Found at i:44723682 original size:14 final size:14
Alignment explanation
Indices: 44723663--44723706 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
44723653 AGGGTATAGA
44723663 TTAAGGGTTGGGGT
1 TTAAGGGTTGGGGT
* * *
44723677 TTAAGGTTTAGGGA
1 TTAAGGGTTGGGGT
44723691 TTAAGGGTTAGGGGT
1 TTAAGGGTT-GGGGT
44723706 T
1 T
44723707 GATGGTTAAG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTGGGGT
Found at i:44724091 original size:21 final size:22
Alignment explanation
Indices: 44724067--44724107 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
44724057 ATGGTTTATT
*
44724067 GTTTAAGGGTT-GGGTTTTAAA
1 GTTTAAGGGTTAGGGGTTTAAA
*
44724088 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGGTTTA
44724108 GGATTTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGGTTTAAA
Found at i:44724634 original size:43 final size:42
Alignment explanation
Indices: 44724577--44724716 Score: 165
Period size: 43 Copynumber: 3.3 Consensus size: 42
44724567 TTAGTGGAAG
* * *
44724577 CGCCTCTAAAGACCCTGATCTTACGCGGCGCTTTCCCCTAAAA
1 CGCCGCTAAAGACCCTGATCTTA-GCGGCGCTTTCACCAAAAA
*
44724620 CGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCAAAAA
1 CGCCGCTAA-AGACCCTGATCT-TAGCGGCGCTTTCACCAAAAA
* * *
44724663 CGCCGCTAAAGACCCTTATCTTTAGCGGCGTTTTGACCAAAAA
1 CGCCGCTAAAGACCCTGATC-TTAGCGGCGCTTTCACCAAAAA
*
44724706 CGCCACTAAAG
1 CGCCGCTAAAG
44724717 GCCAACACCT
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
42 2 0.02
43 79 0.92
44 5 0.06
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (42 bp):
CGCCGCTAAAGACCCTGATCTTAGCGGCGCTTTCACCAAAAA
Found at i:44724729 original size:43 final size:43
Alignment explanation
Indices: 44724642--44724758 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
44724632 CCCTGATCTA
* * *** *
44724642 TAGCGGCGCTTTGACCAAAAACGCCGCTAAAGACCCTTATCTT
1 TAGCGGCGTTTTGACCAAAAACGCCACTAAAGACCAACACCTT
*
44724685 TAGCGGCGTTTTGACCAAAAACGCCACTAAAGGCCAACACCTT
1 TAGCGGCGTTTTGACCAAAAACGCCACTAAAGACCAACACCTT
* * * *
44724728 TAGTGGCATTTTTTA-AAAAAACGCCACTAAA
1 TAGCGGC-GTTTTGACCAAAAACGCCACTAAA
44724759 TTTGGCAGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
43 57 0.92
44 5 0.08
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
TAGCGGCGTTTTGACCAAAAACGCCACTAAAGACCAACACCTT
Found at i:44724878 original size:16 final size:17
Alignment explanation
Indices: 44724852--44724902 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
44724842 CAAAAGTAAT
*
44724852 AAATAAATATATTAAAC
1 AAATAAATATAATAAAC
*
44724869 AAAT-AATATAATAAAT
1 AAATAAATATAATAAAC
*
44724885 ATCAATAAATAAAATAAA
1 A--AATAAATATAATAAA
44724903 AATCGTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 3 0.11
19 10 0.36
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATATAATAAAC
Found at i:44724893 original size:10 final size:9
Alignment explanation
Indices: 44724849--44724902 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
44724839 AGCCAAAAGT
44724849 AATA-AATA
1 AATATAATA
*
44724857 AATATATTA
1 AATATAATA
*
44724866 AACA-AAT-
1 AATATAATA
44724873 AATATAATA
1 AATATAATA
44724882 AATATCAATA
1 AATAT-AATA
*
44724892 AATAAAATA
1 AATATAATA
44724901 AA
1 AA
44724903 AATCGTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 3 0.08
8 9 0.24
9 17 0.46
10 8 0.22
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (9 bp):
AATATAATA
Found at i:44724951 original size:19 final size:20
Alignment explanation
Indices: 44724927--44724964 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
44724917 TACAAAAATG
*
44724927 TTAAAAGTTAAAAT-GAAAA
1 TTAAAAGTCAAAATCGAAAA
44724946 TTAAAAGTCAAAATCGAAA
1 TTAAAAGTCAAAATCGAAA
44724965 TATATTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.24
Consensus pattern (20 bp):
TTAAAAGTCAAAATCGAAAA
Found at i:44725151 original size:21 final size:21
Alignment explanation
Indices: 44725056--44725148 Score: 132
Period size: 21 Copynumber: 4.4 Consensus size: 21
44725046 TTTGACGCTG
44725056 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
44725077 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
44725098 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
44725119 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
44725140 CTCTGCTTC
1 CTCTGCTTC
44725149 TCTTACTGCC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.04, C:0.45, G:0.17, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:44725157 original size:21 final size:21
Alignment explanation
Indices: 44725056--44725168 Score: 109
Period size: 21 Copynumber: 5.4 Consensus size: 21
44725046 TTTGACGCTG
* *
44725056 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCCGC
* ***
44725077 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCTCTCGCTGCCGC
* *
44725098 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCCGC
* *
44725119 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCTCTCGCTGCCGC
**
44725140 CTCTGCTTCTCTTACTGCCGC
1 CTCTGCTTCTCTCGCTGCCGC
*
44725161 ATCTGCTT
1 CTCTGCTT
44725169 TAAGCTGCTG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.05, C:0.43, G:0.17, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCCGC
Found at i:44725216 original size:66 final size:66
Alignment explanation
Indices: 44725139--44725284 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 66
44725129 CTCGCTGCCG
* *
44725139 CCTCTGCTTCTCTTACTGCC-GCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGT
1 CCTCAGCTTCTCTCACT-CCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GT
44725201 TGAA
63 TGAA
* * * *
44725205 CCTCAGCTTCTCTCGCTCCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCACTCCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
44725270 A
66 A
44725271 CCTCAGCTTCTCTC
1 CCTCAGCTTCTCTC
44725285 GATGTTGCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
65 3 0.04
66 64 0.90
67 4 0.06
ACGTcount: A:0.13, C:0.30, G:0.16, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCACTCCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:44725285 original size:66 final size:66
Alignment explanation
Indices: 44725159--44725285 Score: 195
Period size: 66 Copynumber: 1.9 Consensus size: 66
44725149 TCTTACTGCC
44725159 GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTCC
1 GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTCC
44725224 T
66 T
* * *
44725225 GCATCTGCTTTCAGTTG-TAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCG
1 GCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCG
44725286 ATGTTGCCTC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
65 1 0.02
66 51 0.91
67 4 0.07
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTCC
T
Found at i:44725301 original size:66 final size:66
Alignment explanation
Indices: 44725178--44725308 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 66
44725168 TTAAGCTGCT
* *
44725178 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTCCTGCATCTGCTTTCAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATCCTGCATCCGCTTTCAGTTGT
44725243 A
66 A
* ** * *
44725244 GCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTTAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATCCTGCATCCGCTTTCAGTTG
44725308 T
65 T
44725309 GTAATTTGCT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 53 0.93
67 4 0.07
ACGTcount: A:0.13, C:0.27, G:0.18, T:0.42
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATCCTGCATCCGCTTTCAGTTGT
A
Found at i:44730792 original size:25 final size:25
Alignment explanation
Indices: 44730761--44730865 Score: 97
Period size: 25 Copynumber: 4.2 Consensus size: 25
44730751 TAATATATAT
*
44730761 TTATGTATTAAGTAAATTATGTAGG
1 TTATGTATTAAGTAAATTATGTAAG
*
44730786 TTATGTATGT--GTATAAGTAATGTAAG
1 TTATGTAT-TAAGTA-AA-TTATGTAAG
* *
44730812 TTTTGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* ** *
44730837 TTGTGTATTTTGTAACTTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
44730862 TTAT
1 TTAT
44730866 CAAAGTAATG
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
24 3 0.05
25 41 0.64
26 17 0.27
27 3 0.05
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:44730932 original size:9 final size:9
Alignment explanation
Indices: 44730772--44731022 Score: 139
Period size: 9 Copynumber: 28.8 Consensus size: 9
44730762 TATGTATTAA
*
44730772 GTAAATTAT
1 GTAAGTTAT
*
44730781 GTAGGTTAT
1 GTAAGTTAT
*
44730790 GTATGTGTA-
1 GTAAGT-TAT
*
44730799 -TAAGTAAT
1 GTAAGTTAT
*
44730807 GTAAGTTTT
1 GTAAGTTAT
*
44730816 GT-A-TTAA
1 GTAAGTTAT
**
44730823 GTAAACTAT
1 GTAAGTTAT
*
44730832 GTAAGTTGT
1 GTAAGTTAT
*
44730841 GT-A-TTTT
1 GTAAGTTAT
*
44730848 GTAACTTAT
1 GTAAGTTAT
44730857 GTAAGTTAT
1 GTAAGTTAT
** *
44730866 CAAAGTAAT
1 GTAAGTTAT
*
44730875 GTATGTTAT
1 GTAAGTTAT
44730884 GTAAG-T-T
1 GTAAGTTAT
44730891 GTAAGTTAT
1 GTAAGTTAT
*
44730900 -TATGTATTAT
1 GTAAG--TTAT
* * *
44730910 ATAACTTCT
1 GTAAGTTAT
44730919 GTAAGTTAT
1 GTAAGTTAT
44730928 GTAAGTTAT
1 GTAAGTTAT
*
44730937 GTAAGTTGT
1 GTAAGTTAT
*
44730946 GTAAGCTAT
1 GTAAGTTAT
* *
44730955 TTTAGTTAT
1 GTAAGTTAT
44730964 GTAAGCTT-T
1 GTAAG-TTAT
44730973 GT-A-TTAT
1 GTAAGTTAT
44730980 GTAAGTTAT
1 GTAAGTTAT
* *
44730989 GTAGGTTAA
1 GTAAGTTAT
*
44730998 GTAAGTTGT
1 GTAAGTTAT
*
44731007 GTAAATTAT
1 GTAAGTTAT
44731016 GTAAGTT
1 GTAAGTT
44731023 CTTGTACATA
Statistics
Matches: 178, Mismatches: 48, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
6 2 0.01
7 19 0.11
8 15 0.08
9 132 0.74
10 8 0.04
11 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:44731066 original size:16 final size:16
Alignment explanation
Indices: 44731045--44731088 Score: 79
Period size: 16 Copynumber: 2.7 Consensus size: 16
44731035 AATTTTGGTT
44731045 ATGTAAGATATGTATG
1 ATGTAAGATATGTATG
44731061 ATGTAAGATATGTATG
1 ATGTAAGATATGTATG
44731077 ATGTAAGTATAT
1 ATGTAAG-ATAT
44731089 CAGTATTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (16 bp):
ATGTAAGATATGTATG
Found at i:44731329 original size:100 final size:100
Alignment explanation
Indices: 44731274--44731883 Score: 1121
Period size: 100 Copynumber: 6.1 Consensus size: 100
44731264 ATACTTAAAA
* **
44731274 ATATATATTTAAGTAATGTAATATATAAATTTTGAAAAACGATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
44731339 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
44731374 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
44731439 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* * *
44731474 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
*
44731539 TAATAAGTTAAATTATATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
44731574 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
44731639 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
44731674 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
44731739 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
* * *
44731774 ATATATATTTAAGTCATGTAATATATAAATTTTAAAAAATTATATTCGAACAATATATGTATTAG
1 ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
*
44731839 TAATAAGTTAAATTATATTGTAAAAATATTAACAT
66 TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
44731874 ATATATATTT
1 ATATATATTT
44731884 TTTTAATATT
Statistics
Matches: 495, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 495 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (100 bp):
ATATATATTTAAGTAATGTAACATATAAATTTTGAAAAATTATATTCGAACAATATATGTATTAG
TAATAAGTTAAATTAAATTGTAAAAATATTAACAT
Found at i:44731911 original size:46 final size:43
Alignment explanation
Indices: 44731861--44731953 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 43
44731851 TTATATTGTA
* *
44731861 AAAATATTAACATATATATATTTTTTTAATATTAATAAGTTATGAT
1 AAAATA-TAACA-ATATATACTTTTTTAATATTAATAAGTT-TAAT
**
44731907 AAAATATATGAATATATACTTTTTTAATATTAATAAGTTTAAT
1 AAAATATAACAATATATACTTTTTTAATATTAATAAGTTTAAT
44731950 AAAA
1 AAAA
44731954 ACTAAAATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 7 0.16
44 27 0.63
45 3 0.07
46 6 0.14
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.45
Consensus pattern (43 bp):
AAAATATAACAATATATACTTTTTTAATATTAATAAGTTTAAT
Found at i:44732311 original size:7 final size:7
Alignment explanation
Indices: 44732299--44732372 Score: 94
Period size: 7 Copynumber: 10.6 Consensus size: 7
44732289 AAAAAATAGC
44732299 AAAACAG
1 AAAACAG
*
44732306 AAAACAA
1 AAAACAG
*
44732313 AAAATAG
1 AAAACAG
*
44732320 AAAATAG
1 AAAACAG
44732327 AAAACAG
1 AAAACAG
** *
44732334 AATGCAA
1 AAAACAG
44732341 AAAACAG
1 AAAACAG
44732348 AAAACAG
1 AAAACAG
44732355 AAAACAG
1 AAAACAG
44732362 AAAACAG
1 AAAACAG
44732369 AAAA
1 AAAA
44732373 TAAAGAAACA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 57 1.00
ACGTcount: A:0.73, C:0.11, G:0.12, T:0.04
Consensus pattern (7 bp):
AAAACAG
Found at i:44732323 original size:21 final size:21
Alignment explanation
Indices: 44732286--44732387 Score: 96
Period size: 21 Copynumber: 4.8 Consensus size: 21
44732276 CACTTCATTC
*
44732286 AACAAAAAATAGCAAAACAGAA
1 AACAAAAAACAG-AAAACAGAA
* *
44732308 AACAAAAAATAGAAAATAGAA
1 AACAAAAAACAGAAAACAGAA
* ** *
44732329 AACAGAATGCAAAAAACAGAA
1 AACAAAAAACAGAAAACAGAA
*
44732350 AACAGAAAACAGAAAACAGAA
1 AACAAAAAACAGAAAACAGAA
* *
44732371 AATAAAGAAACATAAAA
1 AACAAA-AAACAGAAAA
44732388 ATGGTACAGA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
21 45 0.68
22 21 0.32
ACGTcount: A:0.73, C:0.11, G:0.11, T:0.06
Consensus pattern (21 bp):
AACAAAAAACAGAAAACAGAA
Found at i:44732418 original size:18 final size:19
Alignment explanation
Indices: 44732376--44732419 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
44732366 CAGAAAATAA
*
44732376 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
44732395 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
44732413 AGAAACA
1 AGAAACA
44732420 GAAATTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:44733186 original size:10 final size:10
Alignment explanation
Indices: 44733171--44733195 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44733161 TTCGACATGG
44733171 TTTTGAACAA
1 TTTTGAACAA
44733181 TTTTGAACAA
1 TTTTGAACAA
44733191 TTTTG
1 TTTTG
44733196 CAATTTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (10 bp):
TTTTGAACAA
Found at i:44734034 original size:198 final size:198
Alignment explanation
Indices: 44733695--44734084 Score: 622
Period size: 198 Copynumber: 2.0 Consensus size: 198
44733685 AATTAACCCA
*
44733695 TTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGTT
1 TTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGTA
** * * * *
44733760 AACTCTAAGTCATTGCGTTTTAGAGAAAACGGCATCGTCTCCATAAAAATTAAAACATTTTTGCG
66 AACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGCG
* *
44733825 GCGTTTACTAAAAGCTCCACTAAA-AGTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTAT
131 GCGTGTACTAAAAGCGCCACTAAAGA-TAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTAT
44733889 GTAC
195 GTAC
* *
44733893 TTTGCGGCGTTTATATACTAGCGCCACTAGTAATATGATCAAACGCTGTCG-TTCCCTGATTAGT
1 TTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCC-GATCAGT
*
44733957 AAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAATAATTTTGC
65 AAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGC
* *
44734022 GGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGGAGCCGTTTTCGTAAACAATTT
130 GGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTT
44734085 CTTAAAATTG
Statistics
Matches: 176, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
197 5 0.03
198 170 0.97
199 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (198 bp):
TTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGTA
AACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGCG
GCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTATG
TAC
Found at i:44734582 original size:47 final size:47
Alignment explanation
Indices: 44734494--44734585 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 47
44734484 GTTAATTTCG
* **
44734494 GTAATATTAAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTAAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * * *
44734541 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTAAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
44734586 TATTTCTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (47 bp):
GTAATATTAAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:44734601 original size:18 final size:19
Alignment explanation
Indices: 44734573--44734621 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
44734563 AAAAATAAAA
44734573 ATTTTAGTTTTTTTA-TTTC
1 ATTTTA-TTTTTTTATTTTC
*
44734592 TTTTTA-TTTTTTATTTTC
1 ATTTTATTTTTTTATTTTC
44734610 ATTTTATTTTTT
1 ATTTTATTTTTT
44734622 GTAATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 9 0.35
19 10 0.38
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (19 bp):
ATTTTATTTTTTTATTTTC
Found at i:44734603 original size:17 final size:18
Alignment explanation
Indices: 44734581--44734621 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
44734571 AAATTTTAGT
*
44734581 TTTTTTA-TTTCTTTTTA
1 TTTTTTATTTTCATTTTA
44734598 TTTTTTATTTTCATTTTA
1 TTTTTTATTTTCATTTTA
44734616 TTTTTT
1 TTTTTT
44734622 GTAATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATTTTCATTTTA
Found at i:44734687 original size:16 final size:14
Alignment explanation
Indices: 44734658--44734684 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44734648 TTTACAATTC
44734658 CAAATTATTATATT
1 CAAATTATTATATT
44734672 CAAATTATTATAT
1 CAAATTATTATAT
44734685 ATTGCATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:44734922 original size:7 final size:7
Alignment explanation
Indices: 44734910--44735013 Score: 102
Period size: 7 Copynumber: 14.9 Consensus size: 7
44734900 ATAACCCAAT
44734910 CCCTAAC
1 CCCTAAC
44734917 CCCTAAC
1 CCCTAAC
44734924 CCCTAAC
1 CCCTAAC
*
44734931 TCCTAAC
1 CCCTAAC
*
44734938 CTCTAAC
1 CCCTAAC
44734945 CCCTAAC
1 CCCTAAC
* *
44734952 TCTTAAC
1 CCCTAAC
*
44734959 CCTTAAC
1 CCCTAAC
*
44734966 CCTTAA-
1 CCCTAAC
44734972 CCCTAAAC
1 CCCT-AAC
*
44734980 CCTTAAC
1 CCCTAAC
* *
44734987 CCATGAC
1 CCCTAAC
*
44734994 CTCTAAC
1 CCCTAAC
44735001 CCCTAAC
1 CCCTAAC
44735008 CCCTAA
1 CCCTAA
44735014 AACTTATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
6 3 0.04
7 74 0.93
8 3 0.04
ACGTcount: A:0.30, C:0.47, G:0.01, T:0.22
Consensus pattern (7 bp):
CCCTAAC
Found at i:44735079 original size:7 final size:7
Alignment explanation
Indices: 44735069--44735136 Score: 91
Period size: 7 Copynumber: 9.7 Consensus size: 7
44735059 GAAACTCTAA
44735069 CCTAACC
1 CCTAACC
44735076 CCTAACC
1 CCTAACC
*
44735083 CATAACC
1 CCTAACC
44735090 CCTAACC
1 CCTAACC
*
44735097 CTTAACC
1 CCTAACC
*
44735104 CATAACC
1 CCTAACC
44735111 CCTAACC
1 CCTAACC
*
44735118 CCTAATC
1 CCTAACC
*
44735125 CATAACC
1 CCTAACC
44735132 CCTAA
1 CCTAA
44735137 ATCACATTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.34, C:0.49, G:0.00, T:0.18
Consensus pattern (7 bp):
CCTAACC
Found at i:44735094 original size:21 final size:21
Alignment explanation
Indices: 44735069--44735136 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
44735059 GAAACTCTAA
44735069 CCTAACCCCTAACCCATAACC
1 CCTAACCCCTAACCCATAACC
*
44735090 CCTAACCCTTAACCCATAACC
1 CCTAACCCCTAACCCATAACC
*
44735111 CCTAACCCCTAATCCATAACC
1 CCTAACCCCTAACCCATAACC
44735132 CCTAA
1 CCTAA
44735137 ATCACATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.34, C:0.49, G:0.00, T:0.18
Consensus pattern (21 bp):
CCTAACCCCTAACCCATAACC
Found at i:44735855 original size:188 final size:188
Alignment explanation
Indices: 44735538--44735932 Score: 619
Period size: 188 Copynumber: 2.1 Consensus size: 188
44735528 TTCTTTAGCA
*
44735538 GCGTTTTACCATAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
1 GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
** ** * *
44735603 GCATTTTGCGGCGCTTCCAAATAAACGCCACTAATTATGTTCTTTTACGGTGTTTTTTTAAAAAC
66 GCATTTTGCGGCGAATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
* * * *
44735668 GCCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATGTTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACAGTGCGTTTTCATTAAGATATTTGCG
* *
44735726 GCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACACTGCGTTTTGGTTAAG
1 GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
* * *
44735791 GTATTTTGCGGTGAATAAAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
66 GCATTTTGCGGCGAATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
*
44735856 GCCACTAATACTAATCTACCTCAAGACGAAACAGTGCGTTTTCATTAAGATATTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACAGTGCGTTTTCATTAAGATATTTGCG
* *
44735914 GCGCTTTACCGAAAACGCC
1 GCGTTTTACCGTAAACGCC
44735933 GCGAATACTA
Statistics
Matches: 187, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
188 187 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (188 bp):
GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACACTGCGTTTTGGTTAAG
GCATTTTGCGGCGAATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
GCCACTAATACTAATCTACCTCAAGACCAAACAGTGCGTTTTCATTAAGATATTTGCG
Found at i:44736140 original size:114 final size:113
Alignment explanation
Indices: 44735738--44736321 Score: 460
Period size: 114 Copynumber: 5.1 Consensus size: 113
44735728 GTTTTATCGT
* * * * *
44735738 AAACGCCACTAATTCTAATATACCTCAAAACCAAACACTGCGTTTTGGTTAAGGTATTTTGCGGT
1 AAACGCCACTAATTCTAATATACCTCAAGACAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGC
* * * * *
44735803 GAATAAAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAA
66 G-CTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAA
* * * **
44735852 AAACGCCACTAATACTAATCTACCTCAAGACGAAACAG-TGCGTTTTCATTAAGATA-TTTGCGG
1 AAACGCCACTAATTCTAATATACCTCAAGACAAAAC-GCTGCGTTTTGGTTAAGATATTTTGCGG
* * * * * * *
44735915 CGCTTTACCGA-AAACGCCGCGAA-TACTATTCTTCTGCGGCG-TTTTATAGA
65 CGC-TTA-CAATAAACGCCACTAATTA-TGTTCTTTTACGGCGTTTTTTTA-A
* * *
44735965 AAACGCCAC-AATGTCTAATATACAACT-GA-ACCAAACGCTGCGTTTTGGTTAAGGTATTTTGC
1 AAACGCCACTAAT-TCTAATATAC--CTCAAGACAAAACGCTGCGTTTTGGTTAAGATATTTTGC
* *
44736027 GGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTTAA
63 GGCGCTTAC-AATAAACGCCACTAATTATGTTCTTTTACGGCG-TTTTTTTAA
* * * **
44736080 AAACGCCACTAATAT-TAATCTACCTCAAGATAAAACGGTGCGTTTTCCTTAAGATA-TTTGCGG
1 AAACGCCACTAAT-TCTAATATACCTCAAGACAAAACGCTGCGTTTTGGTTAAGATATTTTGCGG
**** * * * *
44736143 CGCTTTTTGTTAACCGCCGCTAA-TACTATTC-TTTAGCGGCGTTTTTATAAA
65 CGC-TTACAATAAACGCCACTAATTA-TGTTCTTTTA-CGGCGTTTTT-TTAA
* * ** *
44736194 AAACGCCACGAATTCTAATATACAATTGA-AC-CAACGCTGCGTTTTGGTTAA-AGTATTTTGCG
1 AAACGCCACTAATTCTAATATAC-CTCAAGACAAAACGCTGCGTTTTGGTTAAGA-TATTTTGCG
* * *
44736256 GCGCTTACAATAAATGCCACTAATTATGTTCTTTTACGGCATTTTTTTAG
64 GCGCTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAA
*
44736306 AAACGCCACTAGTTCT
1 AAACGCCACTAATTCT
44736322 TCAGGTTTTA
Statistics
Matches: 365, Mismatches: 77, Indels: 58
0.73 0.15 0.12
Matches are distributed among these distances:
112 30 0.08
113 129 0.35
114 151 0.41
115 45 0.12
116 10 0.03
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (113 bp):
AAACGCCACTAATTCTAATATACCTCAAGACAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGC
GCTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAA
Found at i:44736232 original size:228 final size:226
Alignment explanation
Indices: 44735722--44736316 Score: 822
Period size: 227 Copynumber: 2.6 Consensus size: 226
44735712 TTAAGATGTT
*** * ** *
44735722 TGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATAC-CTCAAAACCAAACACTGCGTTTTGG
1 TGCGGCGTTTTATAAAAAACGCCAC-AATTCTAATATACAAT-TGAACCAAACGCTGCGTTTTGG
* * * *
44735786 TTAAGGTATTTTGCGGTGAATAAAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTCTA
64 TTAAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTTTA
*
44735851 AAAACGCCACTAATACTAATCTACCTCAAGACGAAACAGTGCGTTTTCATTAAGATATTTGCGGC
129 AAAACGCCACTAATACTAATCTACCTCAAGACAAAACAGTGCGTTTTCATTAAGATATTTGCGGC
44735916 GCTTTACCGAAAACGCCGCGAATACTATTCTTC
194 GCTTTACCGAAAACGCCGCGAATACTATTCTTC
* *
44735949 TGCGGCGTTTTATAGAAAACGCCACAATGTCTAATATACAACTGAACCAAACGCTGCGTTTTGGT
1 TGCGGCGTTTTATAAAAAACGCCACAAT-TCTAATATACAATTGAACCAAACGCTGCGTTTTGGT
* *
44736014 TAAGGTATTTTGCGGCGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTTA
65 TAAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCG-TTTTTTTA
* * * *
44736079 AAAACGCCACTAATATTAATCTACCTCAAGATAAAACGGTGCGTTTTCCTTAAGATATTTGCGGC
129 AAAACGCCACTAATACTAATCTACCTCAAGACAAAACAGTGCGTTTTCATTAAGATATTTGCGGC
** * * *
44736144 GCTTT-TTGTTAACCGCCGCTAATACTATTCTT-
194 GCTTTACCG-AAAACGCCGCGAATACTATTCTTC
44736176 TAGCGGCGTTTTTATAAAAAACGCCACGAATTCTAATATACAATTGAACC-AACGCTGCGTTTTG
1 T-GCGGCG-TTTTATAAAAAACGCCAC-AATTCTAATATACAATTGAACCAAACGCTGCGTTTTG
* * *
44736240 GTTAAAGTATTTTGCGGCGCTTAC-AATAAATGCCACTAATTATGTTCTTTTACGGCATTTTTTT
63 GTTAAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTTT
*
44736304 AGAAACGCCACTA
128 AAAAACGCCACTA
44736317 GTTCTTCAGG
Statistics
Matches: 330, Mismatches: 31, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
226 22 0.07
227 137 0.42
228 133 0.40
229 35 0.11
230 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (226 bp):
TGCGGCGTTTTATAAAAAACGCCACAATTCTAATATACAATTGAACCAAACGCTGCGTTTTGGTT
AAGGTATTTTGCGGCGCATACAAATAAATGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAA
AACGCCACTAATACTAATCTACCTCAAGACAAAACAGTGCGTTTTCATTAAGATATTTGCGGCGC
TTTACCGAAAACGCCGCGAATACTATTCTTC
Found at i:44741522 original size:16 final size:16
Alignment explanation
Indices: 44741498--44741551 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
44741488 TTTGGTTCGC
* *
44741498 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
44741514 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
44741530 TGTAATGGAATAGAAG
1 TGTAATGGAATAGAGG
44741546 TGTAAT
1 TGTAAT
44741552 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Done.