Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 17 of 290
Found at i:5923361 original size:273 final size:273
Alignment explanation
Indices: 5922874--5923368 Score: 778
Period size: 273 Copynumber: 1.8 Consensus size: 273
5922864 GCTGTAGGAC
* * * *
5922874 CTCAACGAGGCAGCTAAGTGTTCATTTCTATGAGCTGAAAATTGAAACAAATATGAGTTGGCTAC
1 CTCAACGAAGCAGCTAAATGTTCATTTCTATGAGCTGAAAATTCAAACAAATATGAGTCGGCTAC
** *
5922939 TTCTAACCTACTGATACGAAATGCACCTCAATGAGACAGCTAAATGTTCATTTCTATGAGCTGAA
66 TTCTAACCTACCAATACGAAATGCACCTCAATGAGACAACTAAATGTTCATTTCTATGAGCTGAA
* * * *
5923004 AATCGAAACAAATATGAGTTGGCTACTTCTATCCTACCGCTACAAAATGTATCTCAATGAGGCAG
131 AATCAAAACAAATATGAGTTGACTACTTCTAACCTACCGCTACAAAATGTACCTCAATGAGGCAG
5923069 CTAAATGTTCATTTCTTTGAGCTGAAAGACAAAGCAAATATGAGTCGGCTACTTCTAAGCTACCA
196 CTAAATGTTCATTTCTTTGAGCTGAAAGACAAAGCAAATATGAGTCGGCTACTTCTAAGCTACCA
5923134 ATACGAAATGCAT
261 ATACGAAATGCAT
*
5923147 CTCAACGAAGCAGCTAAATGTTCATTTCTTTGAGCTGAAAA-TCAAAGCAAATATGAGTCGGCTA
1 CTCAACGAAGCAGCTAAATGTTCATTTCTATGAGCTGAAAATTCAAA-CAAATATGAGTCGGCTA
* * * *
5923211 CTTCTAAGCTACCAATACGAAATGGACCTCAATGAGGCAACTAAATGTTCATTTCTGTGAGCTGA
65 CTTCTAACCTACCAATACGAAATGCACCTCAATGAGACAACTAAATGTTCATTTCTATGAGCTGA
* * * *
5923276 AAATCAAAACAAATATGAGTTGACTACTTTTAACCTACTGCTACGAAACTG-ACCTCGATGAGGC
130 AAATCAAAACAAATATGAGTTGACTACTTCTAACCTACCGCTAC-AAAATGTACCTCAATGAGGC
5923340 AGCTAAATGTTCATTTCTTTGAGCTGAAA
194 AGCTAAATGTTCATTTCTTTGAGCTGAAA
5923369 ATCGAGAGTG
Statistics
Matches: 200, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
272 4 0.02
273 191 0.95
274 5 0.03
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (273 bp):
CTCAACGAAGCAGCTAAATGTTCATTTCTATGAGCTGAAAATTCAAACAAATATGAGTCGGCTAC
TTCTAACCTACCAATACGAAATGCACCTCAATGAGACAACTAAATGTTCATTTCTATGAGCTGAA
AATCAAAACAAATATGAGTTGACTACTTCTAACCTACCGCTACAAAATGTACCTCAATGAGGCAG
CTAAATGTTCATTTCTTTGAGCTGAAAGACAAAGCAAATATGAGTCGGCTACTTCTAAGCTACCA
ATACGAAATGCAT
Found at i:5923575 original size:122 final size:122
Alignment explanation
Indices: 5923283--5924665 Score: 1731
Period size: 122 Copynumber: 11.3 Consensus size: 122
5923273 TGAAAATCAA
* * * * * * *
5923283 AACAAATATGAGTTGACTACTTTTAACCTACTGCTACGAAACT-GACCTCGATGAGGCAGCTAAA
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATAC-AAAATGGACCTCAATGAGGCAGCTAAA
* * *
5923347 TGTTCATTTCTTTGAGCTGAAAATCGAGAGTGAATAGGTTTTTATGTTTCTCTAGCTCTG
65 TGTTCATTTCTGTGAGCTGAAAATC-AAAGTGAATAGG-TTTTATGTTTCTGTAGCTCTG
* * * * *
5923407 AACAAATATGAATTGGCTAGTTCTAACCTACCAATACGAAACGGACCTCAAAGAGGCAGCTAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
* *
5923472 GTTCGTTTCTGTGAGCTGAAAACCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTG
66 GTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTG
*
5923529 AACAAATATGAATTGCCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
* ** * * * *
5923594 GTTCACTTCCATGAGCTGAAAATCAAAGTGAATAGATTTTATGTTTCCGTAACACTG
66 GTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTG
* * * * *
5923651 AACAAATATGAATTGGCGACTTCTGACCTAGCGATACGAAATGTACCTCAATGAGGCAGCTAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
5923716 GTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGGTTTTTATGTTTCTGTAGCTCTG
66 GTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGG-TTTTATGTTTCTGTAGCTCTG
* *
5923774 AACAAATATGAATTGCCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCGGCTAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
** * * * * * *
5923839 GTTCATTTCCATAAGCTGAAAAAC-AA---AATAGATTTTATGTTTCAGTAACCCTG
66 GTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTG
* * * * * *
5923892 AACAAATATGAATTGGCTACTTCTGACCTACCGATACGAAATGTACCTAAATGAAGCGGCTAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
5923957 GTTCATTTCTGTGAGCTGAAAATCAAAAGTGAATAGGTCTTTATGTTTTCTGTAGCTCTG
66 GTTCATTTCTGTGAGCTGAAAATC-AAAGTGAATAGGT-TTTATG-TTTCTGTAGCTCTG
* * ** * * *
5924017 AACTAATAATGAATTGGCTACTTCTAACCAACCGATATGAAATAGACCTAAATGAGGCAGCAAAA
1 AACAAAT-ATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAA
* * * *
5924082 TGTTCATTTCTCTGAGCTGAAAATCGAAGTGAATAGGTTTTATGTTTTTGTAGCTCTC
65 TGTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTG
** * * * *
5924140 AACAAATATGAATTTCCTACTTCTAACCTACCAATACAAAACGGCCCTCAATGAGCCAGCTAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
* * * * *
5924205 GTTCATTCCTGTGAGCTGAAAATTGAAA-TGAATAGATTTCATGTTTCTGTAGCTGTG
66 GTTCATTTCTGTGAGCTGAAAA-TCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTG
* *
5924262 AACAAATATGAATTGGCTACTTCTAACCTACTGATACGAAATGGACCTCAATGAGGCAGCTAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
* * * *
5924327 GTTTATTTCTATGAGCTAAAAATCAAAGTGAATAGGTTTTTATGTTTCTGCAGCTCTG
66 GTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGG-TTTTATGTTTCTGTAGCTCTG
* * * * *
5924385 GACAAATATGAATTGGCTACTTCTGAGCTACTGATACGAAATGGACCTCAATGAGGCAGCTAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
5924450 GTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGGTTTTTATGTTTCTGTAGCTCTG
66 GTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGG-TTTTATGTTTCTGTAGCTCTG
* * * * *
5924508 AACTAATATGAATTGGCTACCTCTAACCTACCCATACAAAATGGAACTCAATGAGGCAGATAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
* * * * * * * **
5924573 GTTAATTTCTATGAGCTG-AAATCGAAGTAAATAGGTCTTATGTTTCTATA-ATCCA
66 GTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTG
* * *
5924628 AACGAATATGAATCT-GTTACTTCTAACCTATCGATACA
1 AACAAATATGAAT-TGGCTACTTCTAACCTACCGATACA
5924666 GAATAGGCAT
Statistics
Matches: 1088, Mismatches: 157, Indels: 32
0.85 0.12 0.03
Matches are distributed among these distances:
118 97 0.09
119 5 0.00
120 35 0.03
121 18 0.02
122 407 0.37
123 341 0.31
124 83 0.08
125 29 0.03
126 73 0.07
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (122 bp):
AACAAATATGAATTGGCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAAT
GTTCATTTCTGTGAGCTGAAAATCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTG
Found at i:5924137 original size:611 final size:611
Alignment explanation
Indices: 5923283--5924617 Score: 1844
Period size: 611 Copynumber: 2.2 Consensus size: 611
5923273 TGAAAATCAA
* * * * * *
5923283 AACAAATATGAGTTGACTACTTTTAACCTACTGCTACGAAACTGACCTCGATGAGGCAGCTAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACGAAA-TGACCTCAATGAGGCAGCTAAAT
* * *
5923348 GTTCATTTCTTTGAGCTGAAAATCGAGAGTGAATAGGTTTTTATG-TTTCTCTAGCTCTGAACAA
65 GTTCATTTCTATGAGCTGAAAATC-AAAGTGAATAGGTCTTTATGTTTTCTCTAGCTCTGAACAA
* * * * *
5923412 ATATGAATTGGCTAGTTCTAACCTACCAATACGAAACGGACCTCAAAGAGGCAGCTAAATGTTCG
129 ATATGAATTGGCTACTTCTAACCAACCAATACGAAACAGACCTCAAAGAGGCAGCAAAATGTTCA
* *
5923477 TTTCTGTGAGCTGAAAACCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTGAACAAATATGAAT
194 TTTCTCTGAGCTGAAAACCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTCAACAAATATGAAT
* * *
5923542 TGCCTACTTCTAACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAATGTTCACTTCC-AT
259 TGCCTACTTCTAACCTACCAATACAAAACGGACCTCAATGAGCCAGCTAAATGTTCA-TTCCTAT
*
5923606 GAGCTGAAAA-TCAAAGTGAATAGATTTTATGTTTCCGTAACACTGAACAAATATGAATTGGCGA
323 GAGCTGAAAATTCAAA-TGAATAGATTTCATGTTTCCGTAACACTGAACAAATATGAATTGGCGA
* * * *
5923670 CTTCTGACCTAGC-GATACGAAATGTACCTCAATGAGGCAGCTAAATGTTCATTTCTGTGAGCTG
387 CTTCTAACCTA-CTGATACGAAATGGACCTCAATGAGGCAGCTAAATGTTCATTTCTATGAGCTA
*
5923734 AAAATCAAAGTGAATAGGTTTTTATGTTTCTGTAGCTCTGAACAAATATGAATTGCCTACTTCTA
451 AAAATCAAAGTGAATAGGTTTTTATGTTTCTGCAGCTCTGAACAAATATGAATTGCCTACTTCTA
*
5923799 ACCTACCGATACAAAATGGACCTCAATGAGGCGGCTAAATGTTCATTTCCATAAGCTGAAAAAC-
516 ACCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAATGTTCATTTCCATAAGCTGAAAAACA
5923863 AA-AATA-GATTTTATGTTTCAGTAACCCTG
581 AAGAATAGGATTTTATGTTTCAGTAACCCTG
* * * *
5923892 AACAAATATGAATTGGCTACTTCTGACCTACCGATACGAAATGTACCTAAATGAAGCGGCTAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACGAAATG-ACCTCAATGAGGCAGCTAAAT
* * *
5923957 GTTCATTTCTGTGAGCTGAAAATCAAAAGTGAATAGGTCTTTATGTTTTCTGTAGCTCTGAACTA
65 GTTCATTTCTATGAGCTGAAAATC-AAAGTGAATAGGTCTTTATGTTTTCTCTAGCTCTGAACAA
* * *
5924022 ATAATGAATTGGCTACTTCTAACCAACCGATATGAAATAGACCT-AAATGAGGCAGCAAAATGTT
129 AT-ATGAATTGGCTACTTCTAACCAACCAATACGAAACAGACCTCAAA-GAGGCAGCAAAATGTT
* * *
5924086 CATTTCTCTGAGCTGAAAATCGAAGTGAATAGGTTTTATGTTTTTGTAGCTCTCAACAAATATGA
192 CATTTCTCTGAGCTGAAAACCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTCAACAAATATGA
* * *
5924151 ATTTCCTACTTCTAACCTACCAATACAAAACGGCCCTCAATGAGCCAGCTAAATGTTCATTCCTG
257 ATTGCCTACTTCTAACCTACCAATACAAAACGGACCTCAATGAGCCAGCTAAATGTTCATTCCTA
* * * ** *
5924216 TGAGCTGAAAATTGAAATGAATAGATTTCATGTTTCTGTAGCTGTGAACAAATATGAATTGGCTA
322 TGAGCTGAAAATTCAAATGAATAGATTTCATGTTTCCGTAACACTGAACAAATATGAATTGGCGA
*
5924281 CTTCTAACCTACTGATACGAAATGGACCTCAATGAGGCAGCTAAATGTTTATTTCTATGAGCTAA
387 CTTCTAACCTACTGATACGAAATGGACCTCAATGAGGCAGCTAAATGTTCATTTCTATGAGCTAA
* * *
5924346 AAATCAAAGTGAATAGGTTTTTATGTTTCTGCAGCTCTGGACAAATATGAATTGGCTACTTCTGA
452 AAATCAAAGTGAATAGGTTTTTATGTTTCTGCAGCTCTGAACAAATATGAATTGCCTACTTCTAA
* * * ** * *
5924411 GCTACTGATACGAAATGGACCTCAATGAGGCAGCTAAATGTTCATTTCTGTGAGCTGAAAATCAA
517 CCTACCGATACAAAATGGACCTCAATGAGGCAGCTAAATGTTCATTTCCATAAGCTGAAAAACAA
* * * *
5924476 AGTGAATAGGTTTTTATGTTTCTGTAGCTCTG
582 A--GAATAGGATTTTATGTTTCAGTAACCCTG
* * * * * *
5924508 AACTAATATGAATTGGCTACCTCTAACCTACCCATACAAAATGGAACTCAATGAGGCAGATAAAT
1 AACAAATATGAATTGGCTACTTCTAACCTACCGATACGAAAT-GACCTCAATGAGGCAGCTAAAT
* * *
5924573 GTTAATTTCTATGAGCTG-AAATCGAAGTAAATAGGTC-TTATGTTT
65 GTTCATTTCTATGAGCTGAAAATCAAAGTGAATAGGTCTTTATGTTT
5924618 CTATAATCCA
Statistics
Matches: 636, Mismatches: 77, Indels: 22
0.87 0.10 0.03
Matches are distributed among these distances:
608 2 0.00
609 93 0.15
610 27 0.04
611 390 0.61
612 6 0.01
613 8 0.01
614 12 0.02
615 9 0.01
616 88 0.14
617 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (611 bp):
AACAAATATGAATTGGCTACTTCTAACCTACCGATACGAAATGACCTCAATGAGGCAGCTAAATG
TTCATTTCTATGAGCTGAAAATCAAAGTGAATAGGTCTTTATGTTTTCTCTAGCTCTGAACAAAT
ATGAATTGGCTACTTCTAACCAACCAATACGAAACAGACCTCAAAGAGGCAGCAAAATGTTCATT
TCTCTGAGCTGAAAACCAAAGTGAATAGGTTTTATGTTTCTGTAGCTCTCAACAAATATGAATTG
CCTACTTCTAACCTACCAATACAAAACGGACCTCAATGAGCCAGCTAAATGTTCATTCCTATGAG
CTGAAAATTCAAATGAATAGATTTCATGTTTCCGTAACACTGAACAAATATGAATTGGCGACTTC
TAACCTACTGATACGAAATGGACCTCAATGAGGCAGCTAAATGTTCATTTCTATGAGCTAAAAAT
CAAAGTGAATAGGTTTTTATGTTTCTGCAGCTCTGAACAAATATGAATTGCCTACTTCTAACCTA
CCGATACAAAATGGACCTCAATGAGGCAGCTAAATGTTCATTTCCATAAGCTGAAAAACAAAGAA
TAGGATTTTATGTTTCAGTAACCCTG
Found at i:5929049 original size:127 final size:124
Alignment explanation
Indices: 5928822--5929074 Score: 391
Period size: 127 Copynumber: 2.0 Consensus size: 124
5928812 CTTCTAATTC
* * *
5928822 CCAATCAACAAAGCACAGTTCATTGCAATTGAATCTGAGAAATGGATAAAATTTTAATCATTTGT
1 CCAATCAACAAAGCACAGTTCATTACAATTGAATCTAAGAAATGGATAAAATTTCAATCATTTGT
* *
5928887 TGAAATAAACATTTAAATTGGATCATTCAATAAGCATTCATTACTTAAGA-TTCAATTAT
66 TGAAATAAACACTTAAATCGGATCATTCAATAAGCATTCATTACTTAA-ACTTCAATTAT
* *
5928946 CCAATCAACAAAGCACAGTTCATTACAATTGAATCTAAGAAATGTATAAAAAAATTTCATTCATT
1 CCAATCAACAAAGCACAGTTCATTACAATTGAATCTAAGAAATGGAT---AAAATTTCAATCATT
*
5929011 TGTTGAAATAAACACTTAAATCGGATCATTCACTAAGCATTCATTACTTAAACTTCAATTAT
63 TGTTGAAATAAACACTTAAATCGGATCATTCAATAAGCATTCATTACTTAAACTTCAATTAT
5929073 CC
1 CC
5929075 CAAAAATAAT
Statistics
Matches: 117, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
124 44 0.38
126 1 0.01
127 72 0.62
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (124 bp):
CCAATCAACAAAGCACAGTTCATTACAATTGAATCTAAGAAATGGATAAAATTTCAATCATTTGT
TGAAATAAACACTTAAATCGGATCATTCAATAAGCATTCATTACTTAAACTTCAATTAT
Found at i:5930125 original size:17 final size:17
Alignment explanation
Indices: 5930103--5930136 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5930093 CTCATATCAA
5930103 TTAAAAAAAAAATTCAT
1 TTAAAAAAAAAATTCAT
*
5930120 TTAAAAAAAAATTTCAT
1 TTAAAAAAAAAATTCAT
5930137 CTTCTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAAAAAAAAATTCAT
Found at i:5930342 original size:19 final size:19
Alignment explanation
Indices: 5930293--5930343 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
5930283 ACAAAAAAAA
* *
5930293 TTATTTATATTTTAATAAC
1 TTATCTATAGTTTAATAAC
* *
5930312 TAATGGTATAGTTTAATAAC
1 TTAT-CTATAGTTTAATAAC
5930332 TTATCTATAGTT
1 TTATCTATAGTT
5930344 AATTTTTTCC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (19 bp):
TTATCTATAGTTTAATAAC
Found at i:5941089 original size:13 final size:13
Alignment explanation
Indices: 5941067--5941103 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
5941057 ATCACCCCCA
*
5941067 CACCCTACTAAAT
1 CACCCCACTAAAT
5941080 CACCCCACTAAAT
1 CACCCCACTAAAT
5941093 CACCCCACTAA
1 CACCCCACTAA
5941104 CTCCATCACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.16
Consensus pattern (13 bp):
CACCCCACTAAAT
Found at i:5941113 original size:17 final size:17
Alignment explanation
Indices: 5941091--5941147 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
5941081 ACCCCACTAA
5941091 ATCACCCCACTAACTCC
1 ATCACCCCACTAACTCC
*
5941108 ATCACCCCACTAA-ACC
1 ATCACCCCACTAACTCC
*
5941124 AT----CCACTATCTCC
1 ATCACCCCACTAACTCC
5941137 ATCACCCCACT
1 ATCACCCCACT
5941148 TGCCTATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
12 6 0.19
13 4 0.12
16 4 0.12
17 18 0.56
ACGTcount: A:0.30, C:0.51, G:0.00, T:0.19
Consensus pattern (17 bp):
ATCACCCCACTAACTCC
Found at i:5941139 original size:29 final size:30
Alignment explanation
Indices: 5941078--5941147 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 30
5941068 ACCCTACTAA
*
5941078 ATCACCCCACTAAATCACCCCACTAACTCC
1 ATCACCCCACTAAACCACCCCACTAACTCC
* *
5941108 ATCACCCCACTAAACCA-TCCACTATCTCC
1 ATCACCCCACTAAACCACCCCACTAACTCC
5941137 ATCACCCCACT
1 ATCACCCCACT
5941148 TGCCTATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (30 bp):
ATCACCCCACTAAACCACCCCACTAACTCC
Found at i:5941530 original size:3 final size:3
Alignment explanation
Indices: 5941507--5941673 Score: 85
Period size: 3 Copynumber: 55.7 Consensus size: 3
5941497 GGGGAGAGTG
* * *
5941507 TTA TTT TTA ATA TTG TTA TTA TTA TTA -TA TTA TTA TTA -TA CTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * *
5941551 TT- TTA TTA CTG TTA CTA TTA TTT TGTA TATA TTTA TTA TCA TTA TTGA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA TTA TT-A
** ** * *
5941599 TTTA TTA TTA TTA TTA GAA ACA TT- TTA TTA TTT TTA TTA TTT TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
5941644 -TA TTT TTA TTT TTA TTA ATA -TA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5941674 GTCTTCTATT
Statistics
Matches: 121, Mismatches: 32, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
2 12 0.10
3 96 0.79
4 10 0.08
5 3 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:5941542 original size:17 final size:16
Alignment explanation
Indices: 5941517--5941673 Score: 83
Period size: 17 Copynumber: 9.6 Consensus size: 16
5941507 TTATTTTTAA
*
5941517 TATTGTTATTATTATT
1 TATTATTATTATTATT
*
5941533 ATATTATTATTA-TACT
1 -TATTATTATTATTATT
* *
5941549 TATT-TTATTACTGTT
1 TATTATTATTATTATT
*
5941564 ACTATTATTTTGTATATATT
1 --TATTATTAT-TAT-TATT
*
5941584 TATTATCATTATTGATT
1 TATTATTATTATT-ATT
**
5941601 TATTATTATTATTAGAAA
1 TATTATTATTATT--ATT
*
5941619 CATT-TTATTATT-TT
1 TATTATTATTATTATT
*
5941633 TATTATTTTTA-TATT
1 TATTATTATTATTATT
* *
5941648 T-TTATTTTTATTAATA
1 TATTATTATTATT-ATT
5941664 TATTATTATT
1 TATTATTATT
5941674 GTCTTCTATT
Statistics
Matches: 108, Mismatches: 19, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
14 19 0.18
15 15 0.14
16 7 0.06
17 47 0.44
18 15 0.14
19 2 0.02
20 3 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:5941545 original size:20 final size:20
Alignment explanation
Indices: 5941522--5941673 Score: 80
Period size: 20 Copynumber: 7.4 Consensus size: 20
5941512 TTTAATATTG
5941522 TTATTATTATTA-TATTATTA
1 TTATTATTATTATTATTA-TA
*
5941542 TTA-TACTTATT-TTATTACTG
1 TTATTA-TTATTATTATTA-TA
* *
5941562 TTACTATTATT-TTGTATATA
1 TTATTATTATTATTAT-TATA
*
5941582 TTTATTATCATTATTGATT-TA
1 -TTATTATTATTATT-ATTATA
** *
5941603 TTATTATTATTAGAAACATTTTA
1 TTATTATTATT---ATTATTATA
* *
5941626 TTATTTTTATTATTTTTATA
1 TTATTATTATTATTATTATA
* * *
5941646 TTTTTATTTTTATTAATATA
1 TTATTATTATTATTATTATA
5941666 TTATTATT
1 TTATTATT
5941674 GTCTTCTATT
Statistics
Matches: 100, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
19 2 0.02
20 63 0.63
21 15 0.15
22 6 0.06
23 14 0.14
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTATTATTATTATTATTATA
Found at i:5942492 original size:126 final size:126
Alignment explanation
Indices: 5942267--5942495 Score: 386
Period size: 126 Copynumber: 1.8 Consensus size: 126
5942257 AATTGTTTTT
* * * * *
5942267 AAAATAATGGCAATGTTCGGTATTTAAAGACTTCGAAGAATCGTGCCCTAACGTATTGGGTTTTG
1 AAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTTTCG
*
5942332 CTTTCTTTGTTTGTCTTGAATATTCGGATATCCTCTTACCAGTTCACTCTAAAAAAATTTC
66 CTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAATTTC
5942393 AAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTTTCG
1 AAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTTTCG
* *
5942458 CTTTGTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 CTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
5942496 AGGCTAAAGC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 95 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (126 bp):
AAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGTTTCG
CTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAATTTC
Found at i:5947059 original size:127 final size:128
Alignment explanation
Indices: 5946863--5947158 Score: 346
Period size: 127 Copynumber: 2.3 Consensus size: 128
5946853 GTTTATTTTG
* * *
5946863 TAAATGATATTTTCGTTATTACTTAACTAAATTAGTGCATAGTTGACTCGTAGAAACAAATTCAC
1 TAAAT-ATATTTTTGTTATTACTTAGCTAAATTAGTGCATAATTGACTCGTAGAAACAAATTCAC
* * * *
5946928 TAAAAGATTTAATATTAGTGGAGATGACAAAAAT-CTCAAGATTATATAATCTACTTTGTAAAA
65 TAAAAGATGTAATATTAGTGGAGATGACAAAAATCCTCAACATAATAGAATCTACTTTGTAAAA
* * * * *
5946991 TAAATATATTTTTGTTATTACTTAGCTGAATTGGTGCATAATTGACTCGT-GACACCAAATTTAG
1 TAAATATATTTTTGTTATTACTTAGCTAAATTAGTGCATAATTGACTCGTAGA-AACAAATTCAC
* * * * *
5947055 TAAAAGGTGTAATATTAGTTGAGATGACAAAAATACCCTGAACATAATAGAGTTTACTTTGTAAA
65 TAAAAGATGTAATATTAGTGGAGATGACAAAAAT--CCTCAACATAATAGAATCTACTTTGTAAA
5947120 A
128 A
* * *
5947121 TAAA-AGTATTTTTGTCATTACTTGGCTAAATTAATGCA
1 TAAATA-TATTTTTGTTATTACTTAGCTAAATTAGTGCA
5947159 CAGTTGGCTT
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
126 2 0.01
127 79 0.56
128 5 0.04
129 1 0.01
130 54 0.38
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (128 bp):
TAAATATATTTTTGTTATTACTTAGCTAAATTAGTGCATAATTGACTCGTAGAAACAAATTCACT
AAAAGATGTAATATTAGTGGAGATGACAAAAATCCTCAACATAATAGAATCTACTTTGTAAAA
Found at i:5947439 original size:18 final size:17
Alignment explanation
Indices: 5947408--5947444 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
5947398 TATTAAAAAA
*
5947408 TATATTTTTTATAATTT
1 TATATTTTTAATAATTT
5947425 TATACTTTTTAATAATTT
1 TATA-TTTTTAATAATTT
5947443 TA
1 TA
5947445 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATTTTTAATAATTT
Found at i:5950290 original size:21 final size:21
Alignment explanation
Indices: 5950265--5950305 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5950255 AATTACAAAA
* *
5950265 AAATTACCTTTAAAAATATAT
1 AAATTACATATAAAAATATAT
5950286 AAATTACATATAAAAATATA
1 AAATTACATATAAAAATATA
5950306 ATTGCTCCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATTACATATAAAAATATAT
Found at i:5951669 original size:32 final size:29
Alignment explanation
Indices: 5951633--5951694 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 29
5951623 ATTAGTGAAA
*
5951633 TGTAAGAATCAAACCAAAATTAAAGTTAGATG
1 TGTAAAAAT-AAACC-AAATTAAAGTT-GATG
*
5951665 TGTAAAAATATACCAAATTAAAGTTGATG
1 TGTAAAAATAAACCAAATTAAAGTTGATG
5951694 T
1 T
5951695 ATAACATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.18
30 11 0.39
31 4 0.14
32 8 0.29
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (29 bp):
TGTAAAAATAAACCAAATTAAAGTTGATG
Found at i:5956922 original size:28 final size:27
Alignment explanation
Indices: 5956885--5956967 Score: 121
Period size: 28 Copynumber: 3.0 Consensus size: 27
5956875 CACTTTGTGC
5956885 TATTCTGGTGTGTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTGGA-GGATTATAT
5956913 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTT-GGAGGATTATAT
* *
5956941 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTG-TTTGGAGGATTATA
5956968 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 45 0.88
29 6 0.12
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (27 bp):
TATTCTGGTGTGTTTGGAGGATTATAT
Found at i:5956937 original size:23 final size:23
Alignment explanation
Indices: 5956911--5956978 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 23
5956901 GATGGATTAT
5956911 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
5956934 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
*
5956962 ATTATACTGGTGTGTTT
1 ATTATTCTGGTGTGTTT
5956979 TGGTTGGACA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 12 0.32
24 1 0.03
25 3 0.08
26 3 0.08
27 2 0.05
28 17 0.45
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.46
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:5957241 original size:21 final size:21
Alignment explanation
Indices: 5957193--5957243 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
5957183 ATGTGTCATA
*
5957193 TTTCAGGCACCTTGTGTGTCG
1 TTTCAGGCACCTCGTGTGTCG
**
5957214 TAACAGGCACCTCGTGTGTCG
1 TTTCAGGCACCTCGTGTGTCG
5957235 TTTCAGGCA
1 TTTCAGGCA
5957244 TTTATGTGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.31
Consensus pattern (21 bp):
TTTCAGGCACCTCGTGTGTCG
Found at i:5962330 original size:21 final size:20
Alignment explanation
Indices: 5962301--5962348 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
5962291 ACGGGCTGTT
* *
5962301 CACACGGGCATGTACCCCCTC
1 CACATGGGCATGTACACCC-C
* *
5962322 CACATGGGCGTGTAGACCCC
1 CACATGGGCATGTACACCCC
5962342 CACATGG
1 CACATGG
5962349 TCTAGGCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.21, C:0.40, G:0.25, T:0.15
Consensus pattern (20 bp):
CACATGGGCATGTACACCCC
Found at i:5964855 original size:7 final size:8
Alignment explanation
Indices: 5964830--5964857 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
5964820 GTATTCCCTT
5964830 AAATTGAA
1 AAATTGAA
5964838 AAATTGAA
1 AAATTGAA
5964846 AAATTGAA
1 AAATTGAA
5964854 AAAT
1 AAAT
5964858 AAAAGGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (8 bp):
AAATTGAA
Found at i:5968952 original size:17 final size:17
Alignment explanation
Indices: 5968932--5968989 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
5968922 TTTTAAAAGA
5968932 ATAATGAGTTTAATAAT
1 ATAATGAGTTTAATAAT
* *
5968949 ATAA-GATATTTAAGTTAT
1 ATAATGA-GTTTAA-TAAT
*
5968967 CTTAATGAGTTTAATAAT
1 -ATAATGAGTTTAATAAT
5968985 ATAAT
1 ATAAT
5968990 ATATTTAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 2 0.06
17 13 0.42
18 6 0.19
19 8 0.26
20 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (17 bp):
ATAATGAGTTTAATAAT
Found at i:5968973 original size:36 final size:36
Alignment explanation
Indices: 5968933--5969006 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
5968923 TTTAAAAGAA
5968933 TAATGAGTTTAATAATATAAGATATTTAAGTTATCT
1 TAATGAGTTTAATAATATAAGATATTTAAGTTATCT
*
5968969 TAATGAGTTTAATAATATAATATATTTAAGTTATCT
1 TAATGAGTTTAATAATATAAGATATTTAAGTTATCT
5969005 TA
1 TA
5969007 GGAATTTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (36 bp):
TAATGAGTTTAATAATATAAGATATTTAAGTTATCT
Found at i:5973654 original size:29 final size:30
Alignment explanation
Indices: 5973620--5973689 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
5973610 GAAATTCTTA
5973620 AAATATTTTAAAGAAT-TTTTTATATGTGT
1 AAATATTTTAAAGAATATTTTTATATGTGT
**
5973649 AAATATTTTTTGAGAATATTTTTATATGTGT
1 AAATA-TTTTAAAGAATATTTTTATATGTGT
*
5973680 AAATCTTTTA
1 AAATATTTTA
5973690 TTGGTTGCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.14
30 13 0.37
31 17 0.49
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.53
Consensus pattern (30 bp):
AAATATTTTAAAGAATATTTTTATATGTGT
Found at i:5973674 original size:31 final size:30
Alignment explanation
Indices: 5973631--5973688 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
5973621 AATATTTTAA
5973631 AGAATTTTTTATATGTGTAAATATTTTTTG
1 AGAATTTTTTATATGTGTAAATATTTTTTG
*
5973661 AGAATATTTTTATATGTGTAAATCTTTT
1 AGAAT-TTTTTATATGTGTAAATATTTT
5973689 ATTGGTTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (30 bp):
AGAATTTTTTATATGTGTAAATATTTTTTG
Found at i:5973995 original size:73 final size:72
Alignment explanation
Indices: 5973894--5974052 Score: 275
Period size: 73 Copynumber: 2.2 Consensus size: 72
5973884 AGTCATTTAA
* *
5973894 AATT-TTTAAAATTTTAAATTAGTAATGATAAAATTATATTTTGACCTCTTAAAAATATAATATT
1 AATTCTTTAAAAATTTAAATTAGTAATGATAAAATTATATTTTGACCTCTTAAAAATATAACATT
5973958 TTAATTT
66 TTAATTT
*
5973965 AATTCTTTAAAAATTTAAATATAGTGATGATAAAATTATATTTTGACCTCTTAAAAATATAACAT
1 AATTCTTTAAAAATTTAAAT-TAGTAATGATAAAATTATATTTTGACCTCTTAAAAATATAACAT
5974030 TTTAATTT
65 TTTAATTT
5974038 AATTCTTTAAAAATT
1 AATTCTTTAAAAATT
5974053 ACATTTAAAT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
71 4 0.05
72 14 0.17
73 65 0.78
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (72 bp):
AATTCTTTAAAAATTTAAATTAGTAATGATAAAATTATATTTTGACCTCTTAAAAATATAACATT
TTAATTT
Found at i:5974306 original size:5 final size:5
Alignment explanation
Indices: 5974296--5974324 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
5974286 AAAAGCGAAA
5974296 GATAC GATAC GATAC GATAC GATAC GATA
1 GATAC GATAC GATAC GATAC GATAC GATA
5974325 AACTGTAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (5 bp):
GATAC
Found at i:5981311 original size:33 final size:33
Alignment explanation
Indices: 5981264--5981328 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
5981254 AATATTAATA
*
5981264 ATTTATAAAATTTAATTAGAATATA-TAAATTAT
1 ATTTATAAAATTTAAATAGAAT-TAGTAAATTAT
*
5981297 ATTT-TAAATATTTAAATATAATTAGTAAATTA
1 ATTTATAAA-ATTTAAATAGAATTAGTAAATTA
5981329 AAGCACTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (33 bp):
ATTTATAAAATTTAAATAGAATTAGTAAATTAT
Found at i:5981517 original size:22 final size:22
Alignment explanation
Indices: 5981491--5981539 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
5981481 AAATTAGACT
5981491 AAAATTAACATTTATTGTTTAA
1 AAAATTAACATTTATTGTTTAA
* *
5981513 AAAA-TAGCATTTATTGTTTAG
1 AAAATTAACATTTATTGTTTAA
5981534 AAAATT
1 AAAATT
5981540 TAGTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (22 bp):
AAAATTAACATTTATTGTTTAA
Found at i:5981975 original size:32 final size:32
Alignment explanation
Indices: 5981934--5981999 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
5981924 ATGTTAAAAG
*
5981934 TCAATTTAAAGCTAGTTGTAGCTTACTTTGTT
1 TCAATTTAAAGCTAATTGTAGCTTACTTTGTT
5981966 TCAATTTAAAGCTAATTGTAGCTTACTTTGTT
1 TCAATTTAAAGCTAATTGTAGCTTACTTTGTT
5981998 TC
1 TC
5982000 TTAACAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (32 bp):
TCAATTTAAAGCTAATTGTAGCTTACTTTGTT
Found at i:5983973 original size:27 final size:27
Alignment explanation
Indices: 5983921--5983974 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5983911 TTTGGATAAA
* *
5983921 AAACGCCGCTATAGATCGAGCATTAGC
1 AAACGCCGCTATACATCGACCATTAGC
* *
5983948 AAACGCCGCTATACATTGACCGTTAGC
1 AAACGCCGCTATACATCGACCATTAGC
5983975 GGCGTTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (27 bp):
AAACGCCGCTATACATCGACCATTAGC
Found at i:5984025 original size:40 final size:40
Alignment explanation
Indices: 5983970--5984069 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
5983960 ACATTGACCG
*
5983970 TTAGCGGCGTTTTTCAAAAAGCACC-ATTATAGATCGAGCA
1 TTAGCGGCATTTTTCAAAAAGCACCGA-TATAGATCGAGCA
*
5984010 TTAGCGGCATTTTTCAAAAAGCGCCGATATAGATCGAGCA
1 TTAGCGGCATTTTTCAAAAAGCACCGATATAGATCGAGCA
* **
5984050 TTAACGGCACCTTTCAAAAA
1 TTAGCGGCATTTTTCAAAAA
5984070 ACGCCGCAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 53 0.98
41 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (40 bp):
TTAGCGGCATTTTTCAAAAAGCACCGATATAGATCGAGCA
Found at i:5984195 original size:40 final size:40
Alignment explanation
Indices: 5984141--5984269 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
5984131 GTGCTTTTTG
* * *
5984141 AAAAACGCCGCTATAGATTAAGCATTAACGACGCTTTTCA
1 AAAAATGCCGCTATAGATTGAGCATTAGCGACGCTTTTCA
* * *
5984181 AAAAATGCCACTATAGATCGAGCATTAGCAACG-TATTTCA
1 AAAAATGCCGCTATAGATTGAGCATTAGCGACGCT-TTTCA
5984221 AGAAACAT--CGCTATAGATTGAGCATTAGCGACGCTTTTCA
1 A-AAA-ATGCCGCTATAGATTGAGCATTAGCGACGCTTTTCA
5984261 AAAAATGCC
1 AAAAATGCC
5984270 TCAAAAAGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
38 2 0.03
39 4 0.05
40 62 0.84
41 4 0.05
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (40 bp):
AAAAATGCCGCTATAGATTGAGCATTAGCGACGCTTTTCA
Found at i:5984361 original size:194 final size:195
Alignment explanation
Indices: 5983997--5984349 Score: 467
Period size: 195 Copynumber: 1.8 Consensus size: 195
5983987 AAAGCACCAT
** * * *
5983997 TATAGATCGAGCATTAGCGGCATTTTTCAAAAAGCGCCGATATAGATCGAGCATTAACGGCACCT
1 TATAGATCGAGCATTAGCAACATATTTCAAAAAGCACCGATATAGATCGAGCATTAACGACACCT
* *
5984062 TTCAAAAAACGCCGCAAAAGAATTAAGCACAACGATGTCGTTTTATGTTGAGCTTTAGTGGAATT
66 TTCAAAAAACGCCGCAAAAGAATTAAGCACAACGACGTCGTTTTATGTGGAGCTTTAGTGGAATT
* * *
5984127 AGCGGTGCTTTTTGAAAAACGCCGCTATAGATTAAGCATTAACGACGCTTTTCAAAAAATGCCAC
131 AACGGCGCTTTTTGAAAAACGCCGCTATAGATCAAGCATTAACGACGCTTTTCAAAAAATGCCAC
* * * * * * *
5984192 TATAGATCGAGCATTAGCAACGTATTTCAAGAAA-CATCGCTATAGATTGAGCATTAGCGACGCT
1 TATAGATCGAGCATTAGCAACATATTTCAA-AAAGCACCGATATAGATCGAGCATTAACGACACC
* * * * * *
5984256 TTTCAAAAAATGCCTCAAAA-AGTTAAGCATAACGCCGTCGTTTTATGTGGAGCTTTAGTGGCAT
65 TTTCAAAAAACGCCGCAAAAGAATTAAGCACAACGACGTCGTTTTATGTGGAGCTTTAGTGGAAT
*
5984320 TAACGGCGCTTTTTGAAAAATGCCGCTATA
130 TAACGGCGCTTTTTGAAAAACGCCGCTATA
5984350 AGTCGAGCAT
Statistics
Matches: 134, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
194 65 0.49
195 66 0.49
196 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (195 bp):
TATAGATCGAGCATTAGCAACATATTTCAAAAAGCACCGATATAGATCGAGCATTAACGACACCT
TTCAAAAAACGCCGCAAAAGAATTAAGCACAACGACGTCGTTTTATGTGGAGCTTTAGTGGAATT
AACGGCGCTTTTTGAAAAACGCCGCTATAGATCAAGCATTAACGACGCTTTTCAAAAAATGCCAC
Found at i:5985438 original size:14 final size:14
Alignment explanation
Indices: 5985419--5985480 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
5985409 AAGGTTTTTA
5985419 GGTTTAGTGGTTAG
1 GGTTTAGTGGTTAG
* *
5985433 GGTTTAGAGTTTAG
1 GGTTTAGTGGTTAG
5985447 GGTTTA-TGGCTT-G
1 GGTTTAGTGG-TTAG
* *
5985460 GGTTTAGGGGTTAA
1 GGTTTAGTGGTTAG
5985474 GGTTTAG
1 GGTTTAG
5985481 ATTTTCATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.26
14 29 0.74
ACGTcount: A:0.16, C:0.02, G:0.40, T:0.42
Consensus pattern (14 bp):
GGTTTAGTGGTTAG
Found at i:5985439 original size:7 final size:7
Alignment explanation
Indices: 5985415--5985480 Score: 57
Period size: 7 Copynumber: 9.7 Consensus size: 7
5985405 GGGTAAGGTT
5985415 TTTA-GG
1 TTTAGGG
5985421 TTTAGTGG
1 TTTAG-GG
5985429 -TTAGGG
1 TTTAGGG
*
5985435 TTTAGAG
1 TTTAGGG
5985442 TTTAGGG
1 TTTAGGG
*
5985449 TTTATGG
1 TTTAGGG
*
5985456 CTT-GGG
1 TTTAGGG
5985462 TTTAGGG
1 TTTAGGG
* *
5985469 GTTAAGG
1 TTTAGGG
5985476 TTTAG
1 TTTAG
5985481 ATTTTCATAT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
6 10 0.22
7 34 0.74
8 2 0.04
ACGTcount: A:0.17, C:0.02, G:0.38, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:5985445 original size:27 final size:28
Alignment explanation
Indices: 5985415--5985480 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
5985405 GGGTAAGGTT
5985415 TTTAGGTTTAGTGG-TTAGGGTTTA-GAG
1 TTTAGGTTTAGTGGCTT-GGGTTTAGGAG
*
5985442 TTTAGGGTTTA-TGGCTTGGGTTTAGGGG
1 TTTA-GGTTTAGTGGCTTGGGTTTAGGAG
*
5985470 TTAAGGTTTAG
1 TTTAGGTTTAG
5985481 ATTTTCATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 20 0.61
28 13 0.39
ACGTcount: A:0.17, C:0.02, G:0.38, T:0.44
Consensus pattern (28 bp):
TTTAGGTTTAGTGGCTTGGGTTTAGGAG
Found at i:5987795 original size:13 final size:14
Alignment explanation
Indices: 5987779--5987807 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5987769 TTTTAAATAT
5987779 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
5987792 TTATAATGGTTTAA
1 TTATAATGGTTTAA
5987806 TT
1 TT
5987808 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:5988200 original size:21 final size:22
Alignment explanation
Indices: 5988171--5988213 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
5988161 AGCAAATTGC
*
5988171 TCAACTTAAAGTGGAGGCAGCA
1 TCAACTTAAAGAGGAGGCAGCA
5988193 TCAA-TTAAAGAGGAGGCAGCA
1 TCAACTTAAAGAGGAGGCAGCA
5988214 GCGAGGGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (22 bp):
TCAACTTAAAGAGGAGGCAGCA
Found at i:5988488 original size:47 final size:47
Alignment explanation
Indices: 5988419--5988509 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
5988409 TGAATTTTTA
*
5988419 AAGTATCATTTAGATTTGCTATTATTGGTTGGATTTGATATTGCTTG
1 AAGTATCATTTAGATTTGCTATTATTGGTTGAATTTGATATTGCTTG
*
5988466 AAGTATCATTTAGATTTGCTATTATTGGTTGAATTTGATGTTGC
1 AAGTATCATTTAGATTTGCTATTATTGGTTGAATTTGATATTGC
5988510 AGGAAGGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (47 bp):
AAGTATCATTTAGATTTGCTATTATTGGTTGAATTTGATATTGCTTG
Found at i:5988646 original size:40 final size:41
Alignment explanation
Indices: 5988605--5988684 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 41
5988595 AGAAAATACA
5988605 TTTAGCGGCGTTTACAAAAAAAGCGCAGCTAAAAGTCACATT
1 TTTAGCGGCGTTTACAAAAAAAGCGCAGCTAAAAGTCACA-T
* * * * *
5988647 TTTAGCGGCGTTTGCGATAAAAGCGCCGCTAAAGGTCA
1 TTTAGCGGCGTTTACAAAAAAAGCGCAGCTAAAAGTCA
5988685 GGTTCTTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (41 bp):
TTTAGCGGCGTTTACAAAAAAAGCGCAGCTAAAAGTCACAT
Found at i:5988657 original size:42 final size:43
Alignment explanation
Indices: 5988605--5988745 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 43
5988595 AGAAAATACA
* * *
5988605 TTTAGCGGCGTTTACAAAAAAAGCGCAGCTAAAAGTCACATT-
1 TTTAGCGGCGTTTGCAAAAAAAGCGCAGCTAAAGGTCACGTTC
* * * *
5988647 TTTAGCGGCGTTTGCGATAAAAGCGCCGCTAAAGGTCAGGTTC
1 TTTAGCGGCGTTTGCAAAAAAAGCGCAGCTAAAGGTCACGTTC
* * * * * *
5988690 TTTAGCGGCATTTGTACAATAAGCGCAACTAAAGGCCACGTTC
1 TTTAGCGGCGTTTGCAAAAAAAGCGCAGCTAAAGGTCACGTTC
5988733 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
5988746 TTTACATAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 35 0.44
43 45 0.56
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGCAAAAAAAGCGCAGCTAAAGGTCACGTTC
Found at i:5990492 original size:51 final size:51
Alignment explanation
Indices: 5990404--5990531 Score: 202
Period size: 51 Copynumber: 2.5 Consensus size: 51
5990394 TGAGTACTTC
* *
5990404 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATCAG
* *
5990455 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATCAG
* *
5990506 TGACAAGTGATAAGTGATAAGTGGTA
1 TGATAAGTGACAAGTGATAAGTGGTA
5990532 AGTGGTAGCT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
TGATAAGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATCAG
Found at i:5990518 original size:58 final size:58
Alignment explanation
Indices: 5990453--5990576 Score: 212
Period size: 58 Copynumber: 2.1 Consensus size: 58
5990443 TTATCTGATC
5990453 AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
* * * *
5990511 AGTGATAAGTGATAAGTGGTAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACA
1 AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
5990569 AGTGATAA
1 AGTGATAA
5990577 ATGTGATCAG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (58 bp):
AGTGATAAGTGACAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACA
Found at i:5991843 original size:9 final size:9
Alignment explanation
Indices: 5991829--5991855 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
5991819 TTGAAAAATT
5991829 TAACAATAA
1 TAACAATAA
5991838 TAACAATAA
1 TAACAATAA
5991847 TAACAATAA
1 TAACAATAA
5991856 GCTATTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (9 bp):
TAACAATAA
Found at i:6008327 original size:20 final size:21
Alignment explanation
Indices: 6008274--6008327 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
6008264 AAAAATTCTG
*
6008274 AAAAAAATAAAAAAAATAGGA
1 AAAAAAATAATAAAAATAGGA
* *
6008295 AAAAAAATTATAAAAA-AGGC
1 AAAAAAATAATAAAAATAGGA
*
6008315 AAATAAATAATAA
1 AAAAAAATAATAA
6008328 TGAAATAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (21 bp):
AAAAAAATAATAAAAATAGGA
Found at i:6010696 original size:11 final size:11
Alignment explanation
Indices: 6010670--6010702 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
6010660 TTAATTTAAT
6010670 ATATATTT-TA
1 ATATATTTATA
6010680 AT-TATTTATA
1 ATATATTTATA
6010690 ATATATTTATA
1 ATATATTTATA
6010701 AT
1 AT
6010703 TTATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.24
10 6 0.29
11 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATATATTTATA
Found at i:6010704 original size:18 final size:19
Alignment explanation
Indices: 6010661--6010713 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
6010651 AAAACAGACT
6010661 TAATTTA-ATATATATTTTAA
1 TAATTTATA-ATATA-TTTAA
*
6010681 TTATTTATAATATATTT-A
1 TAATTTATAATATATTTAA
6010699 TAATTTATAATATAT
1 TAATTTATAATATAT
6010714 AAAATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.50
19 3 0.10
20 11 0.37
21 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATTTATAATATATTTAA
Found at i:6010714 original size:20 final size:19
Alignment explanation
Indices: 6010665--6010714 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
6010655 CAGACTTAAT
6010665 TTAATATATATTTTAATTA
1 TTAATATATATTTTAATTA
*
6010684 TTTATAATATATTTATAATT-
1 TTAAT-ATATATTT-TAATTA
6010704 TATAATATATA
1 T-TAATATATA
6010715 AAATAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATATATTTTAATTA
Found at i:6023639 original size:68 final size:68
Alignment explanation
Indices: 6023540--6023670 Score: 244
Period size: 68 Copynumber: 1.9 Consensus size: 68
6023530 GAAGTCCGAC
*
6023540 AGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAATAAATGAAGTTC
1 AGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACAAATGAAGTTC
6023605 GGT
66 GGT
*
6023608 AGGACAATAAACATGAGATTATATTGTGTAAGACCATAGCTAGGCTATGACAACAAATGAAGT
1 AGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACAAATGAAGT
6023671 CCACCAATAC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.24
Consensus pattern (68 bp):
AGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACAAATGAAGTTC
GGT
Found at i:6023683 original size:68 final size:68
Alignment explanation
Indices: 6023542--6023707 Score: 226
Period size: 68 Copynumber: 2.4 Consensus size: 68
6023532 AGTCCGACAG
* * **
6023542 GACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAATAAATGAAGTTCGG
1 GACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACAAATGAAGTCCAC
* *
6023607 TAG
66 CAA
*
6023610 GACAATAAACATGAGATTATATTGTGTAAGACCATAGCTAGGCTATGACAACAAATGAAGTCCAC
1 GACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACAAATGAAGTCCAC
6023675 CAA
66 CAA
* * *
6023678 TACAATAAATATGACATTATAC-GATGTAAG
1 GACAATAAACATGAGATTATACTG-TGTAAG
6023708 TGTTGGAAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
67 1 0.01
68 85 0.99
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (68 bp):
GACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACAAATGAAGTCCAC
CAA
Found at i:6030030 original size:19 final size:19
Alignment explanation
Indices: 6030004--6030073 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 19
6029994 TTAGATTTTA
6030004 ATTATAATATAT-ATATTT
1 ATTATAATATATGATATTT
*
6030022 ATTAGTAATATATGATATTA
1 ATTA-TAATATATGATATTT
* * *
6030042 AAT-TAATTTATTATAATTAT
1 ATTATAATATATGAT-ATT-T
6030062 ATTATAATATAT
1 ATTATAATATAT
6030074 TTATATGATA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 13 0.32
19 11 0.28
20 9 0.22
21 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTATAATATATGATATTT
Found at i:6033840 original size:20 final size:20
Alignment explanation
Indices: 6033811--6033851 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
6033801 TCATTTAGAA
6033811 TTTTTATT-AATTTGACCAT
1 TTTTTATTAAATTTGACCAT
*
6033830 TTTTTAGTTAAATTTGATCAT
1 TTTTTA-TTAAATTTGACCAT
6033851 T
1 T
6033852 AATATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 2 0.11
21 11 0.58
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTTTATTAAATTTGACCAT
Found at i:6044946 original size:25 final size:25
Alignment explanation
Indices: 6044908--6044964 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
6044898 AGCTCTCTCT
* *
6044908 TGAGCCATAGAACGGGAAGCTCATG
1 TGAGCCATAGAACGGGAAGATCATA
*
6044933 TGAGCCAT-GTAACGGGAATATCATA
1 TGAGCCATAG-AACGGGAAGATCATA
6044958 TGAGCCA
1 TGAGCCA
6044965 ATATCCGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.19
Consensus pattern (25 bp):
TGAGCCATAGAACGGGAAGATCATA
Found at i:6052985 original size:8 final size:9
Alignment explanation
Indices: 6052963--6053009 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
6052953 ACTAAATTTT
6052963 TATTTTTAA
1 TATTTTTAA
6052972 TATTTTTAA
1 TATTTTTAA
*
6052981 TTTTTTTAA
1 TATTTTTAA
*
6052990 -AATTTTAA
1 TATTTTTAA
6052998 TAATCTTTTAA
1 T-AT-TTTTAA
6053009 T
1 T
6053010 CAAACGAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 6 0.19
9 17 0.55
10 1 0.03
11 7 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TATTTTTAA
Found at i:6052995 original size:17 final size:18
Alignment explanation
Indices: 6052965--6052998 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6052955 TAAATTTTTA
*
6052965 TTTTTAATATTTTTAATT
1 TTTTTAATAATTTTAATT
6052983 TTTTTAA-AATTTTAAT
1 TTTTTAATAATTTTAAT
6052999 AATCTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTAATAATTTTAATT
Found at i:6053288 original size:24 final size:25
Alignment explanation
Indices: 6053242--6053288 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
6053232 ATTAAACACC
6053242 TATTTAGTATGAATTTAAATTATTG
1 TATTTAGTATGAATTTAAATTATTG
*
6053267 TATTT-GT-TGAATATTATATTAT
1 TATTTAGTATGAAT-TTAAATTAT
6053289 ATAAAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (25 bp):
TATTTAGTATGAATTTAAATTATTG
Found at i:6054071 original size:14 final size:14
Alignment explanation
Indices: 6054034--6054067 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
6054024 GTTTGCCAGT
6054034 AAAATATTTTCTGG
1 AAAATATTTTCTGG
6054048 AAAATGATTTT-TGG
1 AAAAT-ATTTTCTGG
6054062 AAAATA
1 AAAATA
6054068 ATTTACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 13 0.68
15 5 0.26
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (14 bp):
AAAATATTTTCTGG
Found at i:6054085 original size:19 final size:20
Alignment explanation
Indices: 6054063--6054101 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
6054053 GATTTTTGGA
*
6054063 AAATAATTTAC-TTTTCTGG
1 AAATAATCTACTTTTTCTGG
*
6054082 AAATGATCTACTTTTTCTGG
1 AAATAATCTACTTTTTCTGG
6054102 TGTTTGGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
AAATAATCTACTTTTTCTGG
Found at i:6054203 original size:18 final size:19
Alignment explanation
Indices: 6054176--6054244 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
6054166 GAAAAACTGT
*
6054176 TTTTACATATATTAATAAA
1 TTTTATATATATTAATAAA
6054195 TTTATATATATATTAATAAA
1 TTT-TATATATATTAATAAA
* *
6054215 -ATTATAT-T-TTAAATTAA
1 TTTTATATATATT-AATAAA
*
6054232 TTTTACATATATT
1 TTTTATATATATT
6054245 GAAATGATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
16 2 0.05
17 6 0.15
18 10 0.25
19 5 0.12
20 17 0.43
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTATATATATTAATAAA
Found at i:6054207 original size:20 final size:20
Alignment explanation
Indices: 6054182--6054221 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6054172 CTGTTTTTAC
*
6054182 ATATATTAATAAATTTATAT
1 ATATATTAATAAAATTATAT
6054202 ATATATTAATAAAATTATAT
1 ATATATTAATAAAATTATAT
6054222 TTTAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATATTAATAAAATTATAT
Found at i:6057352 original size:14 final size:14
Alignment explanation
Indices: 6057333--6057359 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6057323 AAAAAAGCCT
6057333 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
6057347 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
6057360 ACGTTACCAA
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:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:6058129 original size:77 final size:78
Alignment explanation
Indices: 6058010--6058176 Score: 203
Period size: 77 Copynumber: 2.2 Consensus size: 78
6058000 TGAAATATGT
* ** * * * *
6058010 GATAAGTTGGTTTTATGTTGTGTATGCATATATAAATGTAAGGTTAAGAAAGGAACATCGA-CAT
1 GATAAGTTGCTTTTATGCAGTGGATGCATATATAAATATAAGGTGAAGAAAGGAAAATC-ACCAT
*
6058074 TACTG-AAATGTAC
65 TACTGAAAATATAC
* *
6058087 GATAAGTTGCTTTTATGCAGTGGATGCATCTCTAAATATAAGGTGAAGAAAGGAAAATCACCATT
1 GATAAGTTGCTTTTATGCAGTGGATGCATATATAAATATAAGGTGAAGAAAGGAAAATCACCATT
* *
6058152 AGTGAAAATATAT
66 ACTGAAAATATAC
6058165 GATAAGTTGCTT
1 GATAAGTTGCTT
6058177 CTATATAGTA
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
76 1 0.01
77 57 0.75
78 18 0.24
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (78 bp):
GATAAGTTGCTTTTATGCAGTGGATGCATATATAAATATAAGGTGAAGAAAGGAAAATCACCATT
ACTGAAAATATAC
Found at i:6062090 original size:31 final size:31
Alignment explanation
Indices: 6062026--6062140 Score: 89
Period size: 31 Copynumber: 3.8 Consensus size: 31
6062016 CAATCTGGGA
*
6062026 TGGCAAGTCAT-AGTTGTCGGGCAA-TCCAGGG
1 TGGCAAGTCATCA-TTGTCGGGCAATTCGA-GG
6062057 TGGCAAGTCATCATTGTCGGGCAATTCGAGG
1 TGGCAAGTCATCATTGTCGGGCAATTCGAGG
* * *
6062088 TGG-TAG--GTCATTGTCGGG-AAATCTGAGG
1 TGGCAAGTCATCATTGTCGGGCAATTC-GAGG
** * *
6062116 TAACAAGTCATCGTTGTCGAGCAAT
1 TGGCAAGTCATCATTGTCGGGCAAT
6062141 CTGGGATGAC
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
27 4 0.06
28 16 0.24
29 2 0.03
30 2 0.03
31 36 0.55
32 6 0.09
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.26
Consensus pattern (31 bp):
TGGCAAGTCATCATTGTCGGGCAATTCGAGG
Found at i:6064493 original size:22 final size:23
Alignment explanation
Indices: 6064466--6064510 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6064456 GGGTATCTAC
*
6064466 AAATCAAATC-TCTCAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
6064488 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
6064511 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:6064515 original size:22 final size:22
Alignment explanation
Indices: 6064463--6064520 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
6064453 AAAGGGTATC
* *
6064463 TACAAATCAAATC-TCTCAGAT
1 TACAAATCATATCTTCTAAGAT
6064484 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
6064507 TACATATCATATCT
1 TACAAATCATATCT
6064521 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:6068404 original size:53 final size:53
Alignment explanation
Indices: 6068226--6068480 Score: 225
Period size: 55 Copynumber: 4.8 Consensus size: 53
6068216 ATTAGGGTTT
* *
6068226 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGC
* * ** * * *
6068281 AAGGAAATCATGTAAGACCATATCAAGACACGACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
6068336 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * * *
6068389 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--T--CGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * *
6068438 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
6068481 GTACCCGTGT
Statistics
Matches: 165, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
49 40 0.24
51 1 0.01
52 6 0.04
53 44 0.27
54 8 0.05
55 62 0.38
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:6068432 original size:108 final size:110
Alignment explanation
Indices: 6068236--6068433 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 110
6068226 AAGGATACCG
*
6068236 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
6068301 TATCAAGACACGACATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TATCAAGACACGACAATGATAAGTTACTATAAGGCAAAGGTCCCA
* **
6068346 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
* * * *
6068408 ATGTCAAGACATGGCAATGGTAAGTT
65 ATATCAAGACACGACAATGATAAGTT
6068434 TCGAAAGGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 44 0.56
109 7 0.09
110 24 0.31
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TATCAAGACACGACAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:6072421 original size:22 final size:23
Alignment explanation
Indices: 6072394--6072438 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6072384 GGGTATCTAC
6072394 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
6072416 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
6072439 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:6072442 original size:17 final size:17
Alignment explanation
Indices: 6072420--6072470 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
6072410 ATTACAAAAT
6072420 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
6072437 CATATCATATCTAAGATTT
1 CATATC-T-TCTAAGATTA
*
6072456 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
6072471 CATGTTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:6072443 original size:22 final size:22
Alignment explanation
Indices: 6072391--6072448 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
6072381 AAAGGGTATC
*
6072391 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
6072412 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
6072435 TACATATCATATCT
1 TACAAATCATATCT
6072449 AAGATTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:6072451 original size:19 final size:20
Alignment explanation
Indices: 6072404--6072461 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
6072394 AAATCAAATC
*
6072404 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
6072427 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
6072446 TCTAAGATTTCATATC
1 TCTAAGATTACATATC
6072462 TTCGAAGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:6073231 original size:43 final size:42
Alignment explanation
Indices: 6073174--6073282 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
6073164 AATGCCAACA
*
6073174 TCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCC-ACTG
1 TCCCAGACAG-GGTCTTACACGTAATCAAATA-CGATGCCGA-TG
* **
6073217 TTCCAGACAGGGTCTTACACAAAATCAAATACGATGCCGATG
1 TCCCAGACAGGGTCTTACACGTAATCAAATACGATGCCGATG
*
6073259 TCCCAGACATGGTCTTACACGTAA
1 TCCCAGACAGGGTCTTACACGTAA
6073283 ACCTCAAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 29 0.52
43 26 0.46
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACACGTAATCAAATACGATGCCGATG
Found at i:6073309 original size:44 final size:41
Alignment explanation
Indices: 6073169--6073329 Score: 130
Period size: 42 Copynumber: 3.8 Consensus size: 41
6073159 CATACAATGC
* * *
6073169 CAACATCCCAGACGTGGTCTTACATGT-AATCAAATATCGATG
1 CAACGTCCCAGACATGGTCTTACACGTAAATC-AA-ATCGATG
* * * *
6073211 CCACTGTTCCAGACAGGGTCTTACAC-AAAATCAAATACGATG
1 CAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAT-CGATG
* *
6073253 CCGATGTCCCAGACATGGTCTTACACGTAAACCTCAAATCGATG
1 -CAACGTCCCAGACATGGTCTTACACGTAAA--TCAAATCGATG
**
6073297 TCAACGTCCCAGATGTGGTCTTACACG-AAATCA
1 -CAACGTCCCAGACATGGTCTTACACGTAAATCA
6073330 CACATCGAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
41 5 0.05
42 29 0.31
43 28 0.29
44 27 0.28
45 6 0.06
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (41 bp):
CAACGTCCCAGACATGGTCTTACACGTAAATCAAATCGATG
Found at i:6085985 original size:31 final size:31
Alignment explanation
Indices: 6085950--6086010 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
6085940 AGTTAGACAT
* *
6085950 TAAACTTGACAATTGTTTCTATATTGGAGCC
1 TAAACTAGACAATTATTTCTATATTGGAGCC
* *
6085981 TAAACTAGGCAATTATTTTTATATTGGAGC
1 TAAACTAGACAATTATTTCTATATTGGAGC
6086011 TTGAACCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (31 bp):
TAAACTAGACAATTATTTCTATATTGGAGCC
Found at i:6088936 original size:7 final size:7
Alignment explanation
Indices: 6088924--6088956 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
6088914 TTTACGAAAT
6088924 TTTTTTA
1 TTTTTTA
6088931 TTTTTTA
1 TTTTTTA
6088938 TTTATTTA
1 TTT-TTTA
6088946 TTTTTTA
1 TTTTTTA
6088953 TTTT
1 TTTT
6088957 ATGAAAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:6088945 original size:15 final size:15
Alignment explanation
Indices: 6088922--6088955 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6088912 AGTTTACGAA
*
6088922 ATTTTTTTATTTTTT
1 ATTTATTTATTTTTT
6088937 ATTTATTTATTTTTT
1 ATTTATTTATTTTTT
6088952 ATTT
1 ATTT
6088956 TATGAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
ATTTATTTATTTTTT
Found at i:6089036 original size:14 final size:14
Alignment explanation
Indices: 6089017--6089046 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6089007 TTATATCGAG
6089017 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
6089031 ACCAATCCAATTCA
1 ACCAATCCAAATCA
6089045 AC
1 AC
6089047 ATATTTGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:6089753 original size:54 final size:53
Alignment explanation
Indices: 6089671--6089878 Score: 211
Period size: 54 Copynumber: 3.6 Consensus size: 53
6089661 AACCTTGCAG
*
6089671 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAAAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCA-AGAGTATTGT
*
6089725 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAAT-ATAA--ACTC-AA-GAG--T--AT-TG---
6089790 T
53 T
** * *
6089791 ACCAG-TTACCAATCCAGGCTAAATCCCCTGCAATATAAACTTATAGAGTATTGT
1 -CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCA-AGAGTATTGT
6089845 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAAT
6089879 GACAATTACT
Statistics
Matches: 128, Mismatches: 10, Indels: 32
0.75 0.06 0.19
Matches are distributed among these distances:
53 2 0.02
54 63 0.49
55 3 0.02
57 7 0.05
58 5 0.04
60 2 0.02
62 6 0.05
63 6 0.05
65 3 0.02
66 29 0.23
67 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (53 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCAAGAGTATTGT
Found at i:6089889 original size:120 final size:120
Alignment explanation
Indices: 6089676--6089916 Score: 446
Period size: 120 Copynumber: 2.0 Consensus size: 120
6089666 TGCAGCGGGA
*
6089676 TTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAAAGTATTGTCGGGATTACCAGTCCA
1 TTACCAATCCAGGCTAAATCCCCTGCAATATAAACTCACAAAGTATTGTCGGGATTACCAGTCCA
6089741 GGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACCAG
66 GGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACCAG
* * *
6089796 TTACCAATCCAGGCTAAATCCCCTGCAATATAAACTTATAGAGTATTGTCGGGATTACCAGTCCA
1 TTACCAATCCAGGCTAAATCCCCTGCAATATAAACTCACAAAGTATTGTCGGGATTACCAGTCCA
6089861 GGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACCAG
66 GGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACCAG
6089916 T
1 T
6089917 CCAGGCTAAA
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (120 bp):
TTACCAATCCAGGCTAAATCCCCTGCAATATAAACTCACAAAGTATTGTCGGGATTACCAGTCCA
GGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGAATTACCAG
Found at i:6092774 original size:2 final size:2
Alignment explanation
Indices: 6092767--6092796 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6092757 AAATAAGTAA
6092767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6092797 TTGTTTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6097330 original size:17 final size:18
Alignment explanation
Indices: 6097308--6097347 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6097298 GTTTATTTTT
* *
6097308 ATTTTATTTTTCA-AATA
1 ATTTTAGTTTTAATAATA
6097325 ATTTTAGTTTTAATAATA
1 ATTTTAGTTTTAATAATA
6097343 ATTTT
1 ATTTT
6097348 TTAAGCCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
ATTTTAGTTTTAATAATA
Found at i:6098528 original size:26 final size:24
Alignment explanation
Indices: 6098484--6098533 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
6098474 ATTTGTTTTA
*
6098484 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
6098508 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
6098534 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:6100198 original size:21 final size:20
Alignment explanation
Indices: 6100166--6100223 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
6100156 TCATAATGCT
6100166 TATTTATATTTTAATTAATCA
1 TATTT-TATTTTAATTAATCA
*
6100187 TATTTTAGTTTTAATTAATCT
1 TATTTTA-TTTTAATTAATCA
*
6100208 TAATTTA-TTTAATTAA
1 TATTTTATTTTAATTAA
6100224 GATTAATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.26
20 2 0.06
21 23 0.68
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTATTTTAATTAATCA
Found at i:6104068 original size:18 final size:17
Alignment explanation
Indices: 6104028--6104070 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
6104018 AACTTTTTTA
6104028 TATATTTTTAATAATTT
1 TATATTTTTAATAATTT
6104045 TA-ATTTTTAGA-ATATTT
1 TATATTTTTA-ATA-ATTT
6104062 TATATTTTT
1 TATATTTTT
6104071 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TATATTTTTAATAATTT
Found at i:6108739 original size:24 final size:27
Alignment explanation
Indices: 6108685--6108745 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 27
6108675 TTAGATTTAT
6108685 TTAATTTTTTAATAATATAAAGATTAAA
1 TTAATTTTTTAATAATATAAAGATT-AA
6108713 TTAATTTATTTAAT-A-ATAAAGA-T-A
1 TTAATTT-TTTAATAATATAAAGATTAA
6108737 TTAATTTTT
1 TTAATTTTT
6108746 ATAAAAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 2 0.06
24 8 0.25
26 1 0.03
27 7 0.22
28 8 0.25
29 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
TTAATTTTTTAATAATATAAAGATTAA
Found at i:6108742 original size:28 final size:28
Alignment explanation
Indices: 6108677--6108742 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
6108667 ATTAAAATTT
*
6108677 AGATTTATTTAATTTTTTAATAATATAA
1 AGATTTAATTAATTTTTTAATAATATAA
*
6108705 AGATTAAATTAATTTATTTAAT-A-ATAA
1 AGATTTAATTAATTT-TTTAATAATATAA
6108732 AGATATTAATT
1 AGAT-TTAATT
6108743 TTTATAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.24
28 19 0.58
29 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (28 bp):
AGATTTAATTAATTTTTTAATAATATAA
Found at i:6110060 original size:51 final size:52
Alignment explanation
Indices: 6109947--6110066 Score: 129
Period size: 51 Copynumber: 2.3 Consensus size: 52
6109937 TTGTGTAAAT
* * * *
6109947 ATTAACATAATGTATAAGTGTTGAGTACTAAATTTGTTAAATCAAGACTCAA
1 ATTAACAGAATGTATAAATGTTGAGGACTAAATTTGTTAAACCAAGACTCAA
* * * * *
6109999 TTTATC-GAATGTGTAAATGTTGCGGGCTAAATTT-TTAAAACCAAGAC-CAA
1 ATTAACAGAATGTATAAATGTTGAGGACTAAATTTGTT-AAACCAAGACTCAA
6110049 ATTAACAGAATGTATAAA
1 ATTAACAGAATGTATAAA
6110067 CTTTGAAAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
50 9 0.17
51 41 0.76
52 4 0.07
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.33
Consensus pattern (52 bp):
ATTAACAGAATGTATAAATGTTGAGGACTAAATTTGTTAAACCAAGACTCAA
Found at i:6119506 original size:16 final size:16
Alignment explanation
Indices: 6119485--6119523 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6119475 GATTAGTTTA
*
6119485 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
6119501 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
6119517 CTGTAAT
1 CTGTAAT
6119524 AAGTAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:6120766 original size:11 final size:11
Alignment explanation
Indices: 6120750--6120774 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6120740 ATTTAATAGA
6120750 GAGTTCAATTC
1 GAGTTCAATTC
6120761 GAGTTCAATTC
1 GAGTTCAATTC
6120772 GAG
1 GAG
6120775 GGGTTACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (11 bp):
GAGTTCAATTC
Found at i:6121632 original size:18 final size:18
Alignment explanation
Indices: 6121590--6121634 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
6121580 GAAAAATGAG
6121590 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
*
6121607 AA-TTTTGAAAATACGAA
1 AATTTTTGAAAACACGAA
6121624 AATTTTTGAAA
1 AATTTTTGAAA
6121635 CCTGAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 13 0.52
18 8 0.32
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:6122343 original size:3 final size:3
Alignment explanation
Indices: 6122335--6122365 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6122325 ACTAATTTAA
6122335 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6122366 CAAACCAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6122865 original size:12 final size:13
Alignment explanation
Indices: 6122850--6122879 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6122840 TTTGGTTTTT
6122850 TTTTTGCT-GAAA
1 TTTTTGCTGGAAA
6122862 TTTTTGCTGGAAA
1 TTTTTGCTGGAAA
6122875 TTTTT
1 TTTTT
6122880 TTGCTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.57
Consensus pattern (13 bp):
TTTTTGCTGGAAA
Found at i:6122865 original size:13 final size:14
Alignment explanation
Indices: 6122849--6122880 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
6122839 TTTTGGTTTT
6122849 TTTTTTGCT-GAAA
1 TTTTTTGCTGGAAA
6122862 -TTTTTGCTGGAAA
1 TTTTTTGCTGGAAA
6122875 TTTTTT
1 TTTTTT
6122881 TGCTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.47
13 4 0.24
14 5 0.29
ACGTcount: A:0.19, C:0.06, G:0.16, T:0.59
Consensus pattern (14 bp):
TTTTTTGCTGGAAA
Found at i:6123173 original size:30 final size:30
Alignment explanation
Indices: 6123139--6123227 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
6123129 GTTAAAATGT
* * * *
6123139 AATTTAAGGAAATTTTAAGGGTCTAACTGA
1 AATTTAAGGAAAGTTTAAGGGTCAAAATAA
**
6123169 AATTTAAAAAAAGTTTAAGGGTCAAAATAA
1 AATTTAAGGAAAGTTTAAGGGTCAAAATAA
*
6123199 AATTT-AGGAAAAAGTTTAGGGGTCAAAAT
1 AATTTAAGG--AAAGTTTAAGGGTCAAAAT
6123228 GCAATTTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 1 0.02
30 29 0.60
31 18 0.38
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.29
Consensus pattern (30 bp):
AATTTAAGGAAAGTTTAAGGGTCAAAATAA
Found at i:6123234 original size:31 final size:31
Alignment explanation
Indices: 6123152--6123227 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 31
6123142 TTAAGGAAAT
* * * *
6123152 TTTAAGGGTCTAACTGAAATTTA-AAAAAAG
1 TTTAAGGGTCAAAATAAAATTTAGGAAAAAG
6123182 TTTAAGGGTCAAAATAAAATTTAGGAAAAAG
1 TTTAAGGGTCAAAATAAAATTTAGGAAAAAG
*
6123213 TTTAGGGGTCAAAAT
1 TTTAAGGGTCAAAAT
6123228 GCAATTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 20 0.50
31 20 0.50
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (31 bp):
TTTAAGGGTCAAAATAAAATTTAGGAAAAAG
Found at i:6127725 original size:20 final size:20
Alignment explanation
Indices: 6127700--6127742 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
6127690 AACAGTGTTA
6127700 ATAATTGTATTTGAATTTTG
1 ATAATTGTATTTGAATTTTG
6127720 ATAATTGTATTTGAATTTTG
1 ATAATTGTATTTGAATTTTG
6127740 ATA
1 ATA
6127743 TGTAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (20 bp):
ATAATTGTATTTGAATTTTG
Found at i:6134746 original size:29 final size:29
Alignment explanation
Indices: 6134713--6134779 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
6134703 CCACCTTGAC
*
6134713 ACAAGTTCTTCATCGCGAACTTTTAATGA
1 ACAAGTTCTTCATCGCAAACTTTTAATGA
6134742 ACAAGTTCTTCATCGCAAACTTTTAATGA
1 ACAAGTTCTTCATCGCAAACTTTTAATGA
6134771 ACAAGTTCT
1 ACAAGTTCT
6134780 CCACCTCTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (29 bp):
ACAAGTTCTTCATCGCAAACTTTTAATGA
Found at i:6138835 original size:7 final size:8
Alignment explanation
Indices: 6138818--6138842 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6138808 CAAATTTGAG
6138818 AAAAATAA
1 AAAAATAA
6138826 AAAAATAA
1 AAAAATAA
6138834 AAAAATAA
1 AAAAATAA
6138842 A
1 A
6138843 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:6140716 original size:18 final size:16
Alignment explanation
Indices: 6140693--6140733 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
6140683 GAAATAAGGG
6140693 AAGGAAAGAAGGAAAAAA
1 AAGGAAAGAA--AAAAAA
6140711 AAGGAAAGAAAAAAAA
1 AAGGAAAGAAAAAAAA
*
6140727 AGGGAAA
1 AAGGAAA
6140734 ATTTGGAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
18 10 0.45
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAGGAAAGAAAAAAAA
Found at i:6142510 original size:18 final size:18
Alignment explanation
Indices: 6142489--6142679 Score: 140
Period size: 18 Copynumber: 10.6 Consensus size: 18
6142479 TAACTTATTA
6142489 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
6142507 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
* *
6142525 TTAGTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * * *
6142543 GTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
6142561 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
6142579 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
**
6142597 TCGCTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
6142615 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
6142634 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
6142651 TTACTGAATAATTGATTG
1 TTACTGAATAATTGACTG
*
6142669 TTACTGGATAA
1 TTACTGAATAA
6142680 CCGATCAATT
Statistics
Matches: 138, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
17 20 0.14
18 100 0.72
19 18 0.13
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:6144832 original size:12 final size:12
Alignment explanation
Indices: 6144817--6144847 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6144807 TTCTCTTTTA
6144817 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
6144829 TTTTTCTTTCTC
1 TTTTTCTTTCCC
6144841 TTTTTCT
1 TTTTTCT
6144848 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:6144948 original size:16 final size:16
Alignment explanation
Indices: 6144927--6144957 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6144917 TTTATTATTT
6144927 TATTAACATAATATAA
1 TATTAACATAATATAA
*
6144943 TATTAATATAATATA
1 TATTAACATAATATA
6144958 TTAAAATATC
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:6146667 original size:131 final size:131
Alignment explanation
Indices: 6146502--6146754 Score: 371
Period size: 131 Copynumber: 1.9 Consensus size: 131
6146492 AGAAAACACA
* * **
6146502 AGTGAAATTCAAAAGGAATATTCAATTATTTTGAACAGACGGGAAACTGCAACCCATTACGATAG
1 AGTGAAATTCAAAAGGAATATTCAATTATTTTGAACAAACGAGAAACTGCAACCCAGCACGATAG
** *
6146567 GGCACGATTCCTTGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAGGAATTTTTAAAGACAT
66 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGGAATTTTTAAAGACAT
6146632 G
131 G
* * *
6146633 AGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAG
1 AGTGAAATTCAAAAGGAATATTCAATTATTTTGAACAAACGAGAAACTGCAACCCAGCACGATAG
** * * *
6146698 GGCACGATTCCCCGAATTTTCAAACTTCGAACGTTGCCTTTGTTTTAAGGAATTTTT
66 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGGAATTTTT
6146755 TAATGTAAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
131 107 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (131 bp):
AGTGAAATTCAAAAGGAATATTCAATTATTTTGAACAAACGAGAAACTGCAACCCAGCACGATAG
GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGGAATTTTTAAAGACAT
G
Found at i:6152530 original size:2 final size:2
Alignment explanation
Indices: 6152480--6152522 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6152470 TCTCTTTCAC
6152480 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6152522 A
1 A
6152523 AAAGAGAGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6168681 original size:80 final size:80
Alignment explanation
Indices: 6168568--6168758 Score: 321
Period size: 80 Copynumber: 2.4 Consensus size: 80
6168558 ATGCGATCCT
* *
6168568 ATATTGGTT-AGGAAGGGTAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAA
1 ATATTGATTAAGG-AGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAA
*
6168632 CACAATTGTGAGTTTC
65 AACAATTGTGAGTTTC
6168648 ATATTGATTAAGGAGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAAA
1 ATATTGATTAAGGAGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAAA
*
6168713 ACGATTGTGAGTTTC
66 ACAATTGTGAGTTTC
*
6168728 ATATTGATTAAGGAGGGCAAAGAGGTCTTGG
1 ATATTGATTAAGGAGGGCAAAGAGGTATTGG
6168759 TCAATTCATT
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 102 0.97
81 3 0.03
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (80 bp):
ATATTGATTAAGGAGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAAA
ACAATTGTGAGTTTC
Found at i:6168839 original size:79 final size:79
Alignment explanation
Indices: 6168708--6168910 Score: 273
Period size: 79 Copynumber: 2.6 Consensus size: 79
6168698 CAAGGGAGTC
* * *
6168708 GGAAAACGATTGTGAGTTTCATATTGATTAAGGAGGGCAAAGAGGTCTTGGTCAATTCATTCTTT
1 GGAAAACGATTGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTCAATACATTCTTT
6168773 AATATAGTACAATT
66 AATATAGTACAATT
* * * *
6168787 GGAAAATGATTGTGAGTTCCATATTGATTAGGGATGGCAAAGTGGTCTTGGTCAATACGTTCTTT
1 GGAAAACGATTGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTCAATACATTCTTT
* *
6168852 AATATAGTAGAGTT
66 AATATAGTACAATT
* * * * *
6168866 GGAAAACGA-TGTGAGTCCCATATTGGTTAGGAAGGGAAAAAAGGT
1 GGAAAACGATTGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGT
6168911 ATTGCAATTG
Statistics
Matches: 107, Mismatches: 17, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
78 29 0.27
79 78 0.73
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.32
Consensus pattern (79 bp):
GGAAAACGATTGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTCAATACATTCTTT
AATATAGTACAATT
Found at i:6172011 original size:151 final size:145
Alignment explanation
Indices: 6171698--6172103 Score: 413
Period size: 151 Copynumber: 2.7 Consensus size: 145
6171688 AATGATGCGA
* * ** * *
6171698 GTCTCATATTGGTTAGGAAGGGCAAAGATGTATTGAAATTTATATGCTCTACATAGAATGGAATC
1 GTCT-ATATTGGTTAGGAA-GGCAAAGAGGTATTGAAA--TATATGTTCTATGTACAATGGAGTC
* * * * *
6171763 GAAAAACGATTTG-AGTTCCATATTGATTAGGAAGGCATAGAGGCCTAGTTGATATGTTCATTGG
62 AAAAAATGATGTGAAGTTCCATATTGATTAGGAAGGCAAAGAGGCCTAGTTGATATGTTCAATGG
**
6171827 AGTCAGAAAGTGATGTAAG
127 AGTCAGAAAGCAATGTAAG
* *
6171846 GTCTATATTAGTTAGGAAGTGCAAAGAGGTATTGAACATGATATGTTCTATGTACAGTGGAGTCA
1 GTCTATATTGGTTAGGAAG-GCAAAGAGGTATTGAA-AT-ATATGTTCTATGTACAATGGAGTCA
* * * * *
6171911 AAAAATGATGTGACAAGTTCCATATTGATTTGGAAGGCAAAGCAGTCTTAGTTGATTTGTTTAAT
63 AAAAATGATGTG--AAGTTCCATATTGATTAGGAAGGCAAAG-AGGCCTAGTTGATATGTTCAAT
* *
6171976 GGAGTCGGAAAGCAATGT-TG
125 GGAGTCAGAAAGCAATGTAAG
* * *
6171996 GTCCTATATTGGTTAGGAAGGACGAAGAGGTCTTGGAATATATATGTTCTATGTATAATGGAGTC
1 GT-CTATATTGGTTAGGAAGG-CAAAGAGGTATT-GAA-ATATATGTTCTATGTACAATGGAGTC
* *
6172061 AGAAAATTATGTGAA-TTCCATATTGATTAGGAAGGGCAAAGAG
62 AAAAAATGATGTGAAGTTCCATATTGATTAGGAA-GGCAAAGAG
6172104 ATTTTGGAAT
Statistics
Matches: 216, Mismatches: 31, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
146 2 0.01
147 56 0.26
148 24 0.11
149 9 0.04
150 29 0.13
151 91 0.42
152 5 0.02
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.31
Consensus pattern (145 bp):
GTCTATATTGGTTAGGAAGGCAAAGAGGTATTGAAATATATGTTCTATGTACAATGGAGTCAAAA
AATGATGTGAAGTTCCATATTGATTAGGAAGGCAAAGAGGCCTAGTTGATATGTTCAATGGAGTC
AGAAAGCAATGTAAG
Found at i:6173676 original size:36 final size:36
Alignment explanation
Indices: 6173627--6173698 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
6173617 TTACCATAAG
6173627 TTAAATTTCAATTTAATCATCTTATAGGGACTTATA
1 TTAAATTTCAATTTAATCATCTTATAGGGACTTATA
* *
6173663 TTAATTTTTAATTTAATCATCTTATAGGGACTTATA
1 TTAAATTTCAATTTAATCATCTTATAGGGACTTATA
6173699 CAGTCTATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (36 bp):
TTAAATTTCAATTTAATCATCTTATAGGGACTTATA
Found at i:6179170 original size:26 final size:26
Alignment explanation
Indices: 6179141--6179193 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6179131 GTCAGGTCGG
6179141 GTTGGATTCGTATCGGATCTAAGTAT
1 GTTGGATTCGTATCGGATCTAAGTAT
6179167 GTTGGATTCGTATCGGATCTAAGTAT
1 GTTGGATTCGTATCGGATCTAAGTAT
6179193 G
1 G
6179194 GTATTAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (26 bp):
GTTGGATTCGTATCGGATCTAAGTAT
Found at i:6179350 original size:16 final size:15
Alignment explanation
Indices: 6179329--6179370 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
6179319 TTTTTAAATT
*
6179329 TTTTTATATTATATTA
1 TTTTTATATT-TAATA
6179345 TTTTTATATTTAATA
1 TTTTTATATTTAATA
*
6179360 ATTTTATATTT
1 TTTTTATATTT
6179371 TTTGGTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTATATTTAATA
Found at i:6182845 original size:17 final size:17
Alignment explanation
Indices: 6182825--6182858 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6182815 GGAGTCAATG
6182825 GAAAAATATACTCAAAA
1 GAAAAATATACTCAAAA
* *
6182842 GAAACATTTACTCAAAA
1 GAAAAATATACTCAAAA
6182859 TAAGATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.21
Consensus pattern (17 bp):
GAAAAATATACTCAAAA
Found at i:6190977 original size:14 final size:14
Alignment explanation
Indices: 6190958--6190997 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
6190948 TTGATTGCCA
6190958 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
6190972 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
6190986 GGAAAATGTTTT
1 GTAAAATGTTTT
6190998 ATTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:6191006 original size:20 final size:20
Alignment explanation
Indices: 6190981--6191018 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6190971 CGTAAAATGA
*
6190981 TTTCTGGAAAATGTTTTATT
1 TTTCTGGAAAATGATTTATT
*
6191001 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
6191019 CCAGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTATT
Found at i:6195041 original size:4 final size:4
Alignment explanation
Indices: 6195032--6195058 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6195022 GGAATAACTG
6195032 ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACA
6195059 GACAGACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:6198094 original size:18 final size:18
Alignment explanation
Indices: 6198071--6198131 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
6198061 TAACCCCTTG
* *
6198071 TTCCTCACCTACATCTTT
1 TTCCTCACCTGCATCTTC
**
6198089 TTCCTCGGCTGCATCTTC
1 TTCCTCACCTGCATCTTC
* *
6198107 TTACTCACCTGCATCCTC
1 TTCCTCACCTGCATCTTC
6198125 TTCCTCA
1 TTCCTCA
6198132 TATGCACCTT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.13, C:0.41, G:0.07, T:0.39
Consensus pattern (18 bp):
TTCCTCACCTGCATCTTC
Found at i:6201248 original size:17 final size:16
Alignment explanation
Indices: 6201223--6201259 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
6201213 AATTACAATA
*
6201223 TATTTTTAAATTTATT
1 TATTTTTAAATATATT
6201239 TATTTATTAAATATATT
1 TATTT-TTAAATATATT
6201256 TATT
1 TATT
6201260 ATTTTTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTAAATATATT
Found at i:6201986 original size:5 final size:5
Alignment explanation
Indices: 6201976--6202001 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6201966 TTAAGTATGA
6201976 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
6202002 TAATCGTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:6202022 original size:72 final size:67
Alignment explanation
Indices: 6201946--6202086 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
6201936 AAATTAAAGT
*
6201946 ATAAACATTAAATCTTAAATTTAAGTATGATAAATTAAATTAAATTAAATTAAATTTAATCGTTG
1 ATAAACATTAAATCTTAAATTTAAGCATGATAAA-T--A--AAATTAAATTAAATTTAATCGTTG
6202011 ATCAATA
61 ATCAATA
* * * *
6202018 ATAAACATTAAATTTTAAATTTAGGCATGATAAATAAAATTTAATTTAATTTAATCGTTGATCAA
1 ATAAACATTAAATCTTAAATTTAAGCATGATAAATAAAATTAAATTAAATTTAATCGTTGATCAA
6202083 TA
66 TA
6202085 AT
1 AT
6202087 GAAGAAAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
67 31 0.48
69 1 0.02
71 1 0.02
72 31 0.48
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (67 bp):
ATAAACATTAAATCTTAAATTTAAGCATGATAAATAAAATTAAATTAAATTTAATCGTTGATCAA
TA
Done.