Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007807.1 Hibiscus syriacus cultivar Beakdansim tig00110126_pilon, whole genome shotgun sequence
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: 2195110
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 7 of 9
Found at i:1321660 original size:101 final size:100
Alignment explanation
Indices: 1321424--1321662 Score: 231
Period size: 101 Copynumber: 2.4 Consensus size: 100
1321414 TTTTGGAGTA
* ***
1321424 TCGCGTTGCGAATCTT--AAAATCGCGTTGCGAATTTGAC-TTCTGTGTTGCGAATTTGACTTTC
1 TCGCGTTGCGAAT-TTGGAAAATAGCGTTGCGAATTTGACTTTC-ACATTGCGAATTTGACTTTC
*
1321486 GCGTTGCGAATTTGAAACTTGGGTTGCAAAATTTGAAT
64 GCGTTGCGAATTTG-AACTTGCGTTGCAAAATTTGAAT
* ** *
1321524 TCGCGTTGCGATTTTGGACTATCGCGTTGCGAATTTGACTTTCACATTGCGAATTTGACTTAT-G
1 TCGCGTTGCGAATTTGGAAAATAGCGTTGCGAATTTGACTTTCACATTGCGAATTTGACTT-TCG
* * *
1321588 TGTTTCGAATTTG-ACTTTCGCGTTGC-AAATTTGACTT
65 CGTTGCGAATTTGAAC-TT-GCGTTGCAAAATTTGA-AT
* *
1321625 TCGCGTTGTGAATTTGGAAAATAG-GTTGTGAAATTTGA
1 TCGCGTTGCGAATTTGGAAAATAGCGTTGCG-AATTTGA
1321663 ATTCGTGCTG
Statistics
Matches: 115, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
99 4 0.03
100 27 0.23
101 80 0.70
102 4 0.03
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (100 bp):
TCGCGTTGCGAATTTGGAAAATAGCGTTGCGAATTTGACTTTCACATTGCGAATTTGACTTTCGC
GTTGCGAATTTGAACTTGCGTTGCAAAATTTGAAT
Found at i:1329607 original size:30 final size:30
Alignment explanation
Indices: 1329531--1329611 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
1329521 TCATGTTGGG
* * *
1329531 ACAGCTTAGTGGAGAACTTGGAAGATATAT
1 ACAGCTTAGTGGAGCATTTGGAAAATATAT
* * *
1329561 ACAACTTAGTGCAGCATTTTGAAAATATAT
1 ACAGCTTAGTGGAGCATTTGGAAAATATAT
*
1329591 AGAGCTTAGTGGAGCATTTGG
1 ACAGCTTAGTGGAGCATTTGG
1329612 GAGACATTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (30 bp):
ACAGCTTAGTGGAGCATTTGGAAAATATAT
Found at i:1334732 original size:875 final size:876
Alignment explanation
Indices: 1332611--1335230 Score: 4487
Period size: 875 Copynumber: 3.0 Consensus size: 876
1332601 CATCATTTAC
* *
1332611 ATGGATTCCCTGTCCACGAACTATAAAACCTGTGCAGTTGTTTAAATCTTGTTTCGTCATTAAGA
1 ATGGATTCCCTGTCCACGAACTATAAAGCCTGTGTAGTTGTTTAAATCTTGTTTCGTCATTAAGA
*
1332676 TGGTGTCACGAATAAGGCTTTCCTGGATGTAGCCTTTTTGTAACAAATCTAACTCTTTGGTTTCT
66 TGGTGTCACGACTAAGGCTTTCCTGGATGTAGCCTTTTTGTAACAAATCTAACTCTTTGGTTTCT
* * *
1332741 TCGAGATTGTATGTTTGATGAGGTATGATGAAACCTTGAATTAGATTGGTTTGGTATTGTTTTCA
131 TCGAGATTGTATGTTTGACGAGGTATGATGAAACCTTGAATTAGATTGGTTTGGTGTTGTTTTCC
1332806 TCTTTTCGGTGGTAATTCGTTAGGTGGATCACATAACACTTCTCGAAAATCATGTAACAAAGATG
196 TCTTTTCGGTGGTAATTCGTTAGGTGGATCACATAACACTTCTCGAAAATCATGTAACAAAGATG
*
1332871 AAAACACACTAGGCAAATCCTTGTTAATGTTAGAAATCGAAACAATTGATTCCCTAAAGCAAACA
261 AAAACACACTAGGCAAATCCTTGTTAATGTTAGAAATCGAAACAATTGATTCCCTAAAGCGAACA
*
1332936 AGGATGGAAGGTTGTTTGTAAAGAATGTTCTCTCTCAATTCTTTTATGCTCACACATAGAGTTTG
326 AGGATGGAAGGTTGTTTGTAAAGAATGTTCTCTCTCAATTCTTTTATGCTCACACATAGATTTTG
*
1333001 AGTCACTCTTTTCTTCTCACAATTAGGTTCACTCACCTCCCATGTGTCATTATTCTTTT-GCTTT
391 AGTCACTCTTTTCTTCTCACAATTAGGTTCACTCACCTCCCATGGGTCATTATTCTTTTGGC-TT
* * * *
1333065 TTGTAACTAGTGACCTCTTTTTCTTTTGCCTTTTTCTCAGCTTTTTATTTTTTTTGCTTTCCTTA
455 TTATAACTAGTGACCTCTTTTTCTTTTGCCTTTTTCTCAGCTTTTT-CTTTTTTTGCTCTCCCTA
1333130 CCACCTCACAAATTATCATTTGATCTTTAGGGGCTGGAAGTGTGTCATTCTTGTTGGTCGTTCTT
519 CCACCTCACAAATTATCATTTGATCTTTAGGGGCTGGAAGTGTGTCATTCTTGTTGGTCGTTCTT
* *
1333195 TCTCCTTTTCAGGTTTGTCATCTATTGGCTTTTTCTGAGAAGATGGACTAGAAGAAGAAGAATGA
584 TCTCCTTGTCAGGTTTGTCATCTCTTGGCTTTTTCTGAGAAGATGGACTAGAAGAAGAAGAATGA
*
1333260 TTTGAATGATTACCTTGGTAAGAGGATGAAGTACCTTGGTAATATTCTCTAAATTGGAATCTCCT
649 TTTGAATGATTACCTTGGTAAGAGGATGAAGTACCTTGGTAATATTCTCTGAATTGGAATCTCCT
1333325 TTGGATTTGTGCTTCGATTGTTATTGCCTTCTTTAATGTATCTTCAAGGTTTTTGTACTCATGGA
714 TTGGATTTGTGCTTCGATTGTTATTGCCTTCTTTAATGTATCTTCAAGGTTTTTGTACTCATGGA
*
1333390 GATCAAGAAGAATAGTGATGTTTGAGTTTAAGCCGACGATAAATCTTGACACGGTGACCTCTTCT
779 GATCAAGAAGAATAGTGATGTTTGAGTTTAAG-CGACGATGAATCTTGACACGGTGACCTCTTCT
*
1333455 TTTTCGGTTATGTTAACCCTGTTGAGTAAGGTTTGCATCATTT
843 TTTTCGGTTATGTTAACCCTATTGAGTAA-G---G-----TTT
* * *
1333498 ACATGGATTCTCTATCCACGAACTATAAAGCCTGTGTAGTTGTTTAAATATTGTTTCGTCATTAA
1 --ATGGATTCCCTGTCCACGAACTATAAAGCCTGTGTAGTTGTTTAAATCTTGTTTCGTCATTAA
*
1333563 GATGGTGTCACAACTAAGGCTTTCCTGGATGTAGCCTTTTTGTAACAAATCTAACTCTTTGGTTT
64 GATGGTGTCACGACTAAGGCTTTCCTGGATGTAGCCTTTTTGTAACAAATCTAACTCTTTGGTTT
*
1333628 CTTCGAGATTGTATGTTTGACGAGGTATGATGGAACCTTGAATTAGATTGGTTTGGTGTTGTTTT
129 CTTCGAGATTGTATGTTTGACGAGGTATGATGAAACCTTGAATTAGATTGGTTTGGTGTTGTTTT
*
1333693 CCTCTTTTCAGTGGTAATTCGTTAGGTGGATCACATAACACTTCTCGAAAATCATGTAACAAAGA
194 CCTCTTTTCGGTGGTAATTCGTTAGGTGGATCACATAACACTTCTCGAAAATCATGTAACAAAGA
* *
1333758 TGAAAACACACTAGGCAAATCCTTGTTAATGTTAGAAATTGAAACAATTGATTCCCTAAAGTGAA
259 TGAAAACACACTAGGCAAATCCTTGTTAATGTTAGAAATCGAAACAATTGATTCCCTAAAGCGAA
* *
1333823 TAAGGATGGAAGGTTGTTTGTAAAGAATGTTCTCTCTCAATTCTTTTATACTCACACATAGATTT
324 CAAGGATGGAAGGTTGTTTGTAAAGAATGTTCTCTCTCAATTCTTTTATGCTCACACATAGATTT
1333888 TGAGTCACTCTTTTCTTCTCACAATTAGGTTCACTCACCTCCCATGGGTCATTATTCTTTTGGCT
389 TGAGTCACTCTTTTCTTCTCACAATTAGGTTCACTCACCTCCCATGGGTCATTATTCTTTTGGCT
*
1333953 TTTATAACTAATGACCTCTTTTTCTTTTGCCTTTTTCTCAGCTTTTTCTTTTTTTGCTCTCCCTA
454 TTTATAACTAGTGACCTCTTTTTCTTTTGCCTTTTTCTCAGCTTTTTCTTTTTTTGCTCTCCCTA
*
1334018 CC-CCTCACAAATTATCATTTGATCTTTAGAGGCTGGAAGTGTGTCATTCTTGTTGGTCGTTCTT
519 CCACCTCACAAATTATCATTTGATCTTTAGGGGCTGGAAGTGTGTCATTCTTGTTGGTCGTTCTT
* *
1334082 TCTCCTTGTCTGGTTTGTCATCTCTTGGCTTTTTCTGAGAAGATAGACTAGAAGAAGAAGAATGA
584 TCTCCTTGTCAGGTTTGTCATCTCTTGGCTTTTTCTGAGAAGATGGACTAGAAGAAGAAGAATGA
*
1334147 TTTGAATGATTACCTTGGTAAGAGGATGAAGTACCTTGGTAATATTCTTTGAATTGGAATCTCCT
649 TTTGAATGATTACCTTGGTAAGAGGATGAAGTACCTTGGTAATATTCTCTGAATTGGAATCTCCT
*
1334212 TTGGATTTGTGCTTCGATTGTTATTGCCTTCTTTAATGTATATTCAAGGTTTTTGTACTCATGGA
714 TTGGATTTGTGCTTCGATTGTTATTGCCTTCTTTAATGTATCTTCAAGGTTTTTGTACTCATGGA
* *
1334277 GATCAAGAAGAATAGTGATGTTTGCGTTTAAGCAGACGATGAATCTTGGCACGGTGACCTCTTCT
779 GATCAAGAAGAATAGTGATGTTTGAGTTTAAGC-GACGATGAATCTTGACACGGTGACCTCTTCT
1334342 TTTTCGGTTATGTTAACCCTATTGAGTAAGGTTT
843 TTTTCGGTTATGTTAACCCTATTGAGTAAGGTTT
*
1334376 -TGGATTCCCTGTCCACGAACTATAAAGCATGTGTAGTTGTTTAAATCTTGTTTCGTCATTAAGA
1 ATGGATTCCCTGTCCACGAACTATAAAGCCTGTGTAGTTGTTTAAATCTTGTTTCGTCATTAAGA
1334440 TGGTGTCACGACTAAGGCTTTCCTGGATGTAGCCTTTTTGTAACAAATCTAACTCTTTGGTTTCT
66 TGGTGTCACGACTAAGGCTTTCCTGGATGTAGCCTTTTTGTAACAAATCTAACTCTTTGGTTTCT
1334505 TCGAGATTGTATGTTTGACGAGGTATGATGAAACCTTGAATTAGATTGGTTTGGTGTTGTTTTCC
131 TCGAGATTGTATGTTTGACGAGGTATGATGAAACCTTGAATTAGATTGGTTTGGTGTTGTTTTCC
*
1334570 TCTTTTCGGTGGTAATTCGTTAGGTGGATCACATAACACTTCTCAAAAATCATGTAACAAAGATG
196 TCTTTTCGGTGGTAATTCGTTAGGTGGATCACATAACACTTCTCGAAAATCATGTAACAAAGATG
* *
1334635 AAAACATACTAGGCAAATCCTTGTTAATGTTAGAAATCGAAATAATTGATTCCCTAAAGCGAACA
261 AAAACACACTAGGCAAATCCTTGTTAATGTTAGAAATCGAAACAATTGATTCCCTAAAGCGAACA
*
1334700 AGGATGTAAGGTTGTTTGTAAAGAATGTTCTCTCTCAATTCTTTTATGCTCACACATAGATTTTG
326 AGGATGGAAGGTTGTTTGTAAAGAATGTTCTCTCTCAATTCTTTTATGCTCACACATAGATTTTG
1334765 AGTCACTCTTTTCTTCTCACAATTAGGTTCACTCACCTCCCATGGGTCATTATTCTTTTGGCTTT
391 AGTCACTCTTTTCTTCTCACAATTAGGTTCACTCACCTCCCATGGGTCATTATTCTTTTGGCTTT
* * *
1334830 TATAACTAGTGACCTCATTTTCTTTTGCCTTTTTCTCATCTTTTTCTTTTTTTGCTCTCTCTACC
456 TATAACTAGTGACCTCTTTTTCTTTTGCCTTTTTCTCAGCTTTTTCTTTTTTTGCTCTCCCTACC
*
1334895 ACCTCACAAATTATCATTTGATCTTTAGGGGCTGGAAGTGTGTCATTCTTATTGGTCGTTCTTTC
521 ACCTCACAAATTATCATTTGATCTTTAGGGGCTGGAAGTGTGTCATTCTTGTTGGTCGTTCTTTC
1334960 TCCTTGTCAGGTTTGTCATCTCTTGGCTTTTTCTGAGAAGATGGACTAGAAGAAGAAGAATGA-T
586 TCCTTGTCAGGTTTGTCATCTCTTGGCTTTTTCTGAGAAGATGGACTAGAAGAAGAAGAATGATT
1335024 T---TGA--A---T--T------AT----TACCTTGGTAATATTCTCTGAATTGGAATCTCCTTT
651 TGAATGATTACCTTGGTAAGAGGATGAAGTACCTTGGTAATATTCTCTGAATTGGAATCTCCTTT
* *
1335069 GGATTTGTGCTTCGATTGTTATTGCCTTCTTTAATGTATCTTTAAGGTTTTTATACTCATGGAGA
716 GGATTTGTGCTTCGATTGTTATTGCCTTCTTTAATGTATCTTCAAGGTTTTTGTACTCATGGAGA
*
1335134 TCAAGAAGAATAGTGATGTTTGAGTTTAAGTCGACGATGAATCTTGACACAGTGACCTCTTCTTT
781 TCAAGAAGAATAGTGATGTTTGAGTTTAAG-CGACGATGAATCTTGACACGGTGACCTCTTCTTT
*
1335199 TTTGGTTATGTTAACCCTATTGAGTAAGGTTT
845 TTCGGTTATGTTAACCCTATTGAGTAAGGTTT
1335231 GCATCTCCTT
Statistics
Matches: 1660, Mismatches: 67, Indels: 42
0.94 0.04 0.02
Matches are distributed among these distances:
855 188 0.11
856 1 0.00
859 2 0.00
865 1 0.00
867 1 0.00
870 1 0.00
872 3 0.00
875 502 0.30
876 123 0.07
878 3 0.00
883 1 0.00
886 2 0.00
887 337 0.20
888 17 0.01
889 476 0.29
890 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (876 bp):
ATGGATTCCCTGTCCACGAACTATAAAGCCTGTGTAGTTGTTTAAATCTTGTTTCGTCATTAAGA
TGGTGTCACGACTAAGGCTTTCCTGGATGTAGCCTTTTTGTAACAAATCTAACTCTTTGGTTTCT
TCGAGATTGTATGTTTGACGAGGTATGATGAAACCTTGAATTAGATTGGTTTGGTGTTGTTTTCC
TCTTTTCGGTGGTAATTCGTTAGGTGGATCACATAACACTTCTCGAAAATCATGTAACAAAGATG
AAAACACACTAGGCAAATCCTTGTTAATGTTAGAAATCGAAACAATTGATTCCCTAAAGCGAACA
AGGATGGAAGGTTGTTTGTAAAGAATGTTCTCTCTCAATTCTTTTATGCTCACACATAGATTTTG
AGTCACTCTTTTCTTCTCACAATTAGGTTCACTCACCTCCCATGGGTCATTATTCTTTTGGCTTT
TATAACTAGTGACCTCTTTTTCTTTTGCCTTTTTCTCAGCTTTTTCTTTTTTTGCTCTCCCTACC
ACCTCACAAATTATCATTTGATCTTTAGGGGCTGGAAGTGTGTCATTCTTGTTGGTCGTTCTTTC
TCCTTGTCAGGTTTGTCATCTCTTGGCTTTTTCTGAGAAGATGGACTAGAAGAAGAAGAATGATT
TGAATGATTACCTTGGTAAGAGGATGAAGTACCTTGGTAATATTCTCTGAATTGGAATCTCCTTT
GGATTTGTGCTTCGATTGTTATTGCCTTCTTTAATGTATCTTCAAGGTTTTTGTACTCATGGAGA
TCAAGAAGAATAGTGATGTTTGAGTTTAAGCGACGATGAATCTTGACACGGTGACCTCTTCTTTT
TCGGTTATGTTAACCCTATTGAGTAAGGTTT
Found at i:1335833 original size:17 final size:17
Alignment explanation
Indices: 1335807--1335844 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 17
1335797 CATAACACTA
1335807 AAAAACATAAAGAAAAAT
1 AAAAACATAAA-AAAAAT
1335825 AAAAA-ATAAAAAAAAT
1 AAAAACATAAAAAAAAT
1335841 AAAA
1 AAAA
1335845 TTCAACAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 5 0.25
18 5 0.25
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (17 bp):
AAAAACATAAAAAAAAT
Found at i:1349945 original size:17 final size:18
Alignment explanation
Indices: 1349918--1349951 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1349908 CTTTTTGAAC
1349918 TTCTCTTTTTCTTTTCTT
1 TTCTCTTTTTCTTTTCTT
1349936 TTCT-TTTTTCTTTTCT
1 TTCTCTTTTTCTTTTCT
1349952 GATTTTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTCTCTTTTTCTTTTCTT
Found at i:1349946 original size:12 final size:12
Alignment explanation
Indices: 1349929--1349968 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1349919 TCTCTTTTTC
1349929 TTTTCTTTTCTT
1 TTTTCTTTTCTT
*
1349941 TTTTCTTTTCTGA
1 TTTTCTTTTCT-T
*
1349954 TTTTCTCTTCTT
1 TTTTCTTTTCTT
1349966 TTT
1 TTT
1349969 GCACTCCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:1354523 original size:14 final size:15
Alignment explanation
Indices: 1354506--1354547 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
1354496 GAACTTCTCT
*
1354506 TTTTCTTTCTTTT-C
1 TTTTCTTTCTTTTGA
1354520 TTTTC-TTCTTTTGA
1 TTTTCTTTCTTTTGA
1354534 TTTTCTCTTCTTTT
1 TTTTCT-TTCTTTT
1354548 TGCACTCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 7 0.29
14 10 0.42
16 7 0.29
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTCTTTCTTTTGA
Found at i:1357413 original size:36 final size:36
Alignment explanation
Indices: 1357317--1357425 Score: 136
Period size: 35 Copynumber: 3.1 Consensus size: 36
1357307 GGTGGTTATT
* ** *
1357317 TAGGCGTGAAATGGT-GATAGAAGATGGAAATGATA
1 TAGGCGTGAAATGGTAGATGGAAGATGGTGATGTTA
*
1357352 TAGGCGTGCAATGGTA-ATGGAAGATGGTGATGTTA
1 TAGGCGTGAAATGGTAGATGGAAGATGGTGATGTTA
1357387 TAGGCGTGAAAAT-GTAGATGGAAGATGGTGATGTT-
1 TAGGCGTG-AAATGGTAGATGGAAGATGGTGATGTTA
1357422 TAGG
1 TAGG
1357426 TAGTATCTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
35 44 0.68
36 21 0.32
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.27
Consensus pattern (36 bp):
TAGGCGTGAAATGGTAGATGGAAGATGGTGATGTTA
Found at i:1369556 original size:28 final size:27
Alignment explanation
Indices: 1369525--1369590 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
1369515 CAAAAAGAAA
1369525 AGAAAAGACA-AAAAGAAGAAAAAAATTT
1 AGAAAAGA-AGAAAAGAA-AAAAAAATTT
* *
1369553 AGAAAAGAAGAAAAGAAAAAGAAGTTT
1 AGAAAAGAAGAAAAGAAAAAAAAATTT
1369580 A-AAAAG-AGAAA
1 AGAAAAGAAGAAA
1369591 GCAAGCCAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 5 0.14
26 5 0.14
27 10 0.29
28 15 0.43
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (27 bp):
AGAAAAGAAGAAAAGAAAAAAAAATTT
Found at i:1369589 original size:25 final size:25
Alignment explanation
Indices: 1369540--1369590 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
1369530 AGACAAAAAG
1369540 AAGAAAAAAATTTAGAAAAGAAGAA
1 AAGAAAAAAATTTAGAAAAGAAGAA
1369565 AAGAAAAAGAAGTTTA-AAAAG-AGAA
1 AAGAAAAA-AA-TTTAGAAAAGAAGAA
1369590 A
1 A
1369591 GCAAGCCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 13 0.54
26 7 0.29
27 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (25 bp):
AAGAAAAAAATTTAGAAAAGAAGAA
Found at i:1374001 original size:25 final size:22
Alignment explanation
Indices: 1373972--1374017 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1373962 TTTTTAACCC
1373972 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
1373997 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
1374018 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:1377698 original size:1 final size:1
Alignment explanation
Indices: 1377694--1377760 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
1377684 TTTTGGCTTC
*** * * *** *
1377694 TTTTTTTTTTTTGCCTTTTTTTGTTTTTTTTTTGTTTTTTTTTTGCCTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1377759 TT
1 TT
1377761 GAAAAAAATA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.06, G:0.07, T:0.87
Consensus pattern (1 bp):
T
Found at i:1377702 original size:17 final size:18
Alignment explanation
Indices: 1377682--1377755 Score: 79
Period size: 18 Copynumber: 4.3 Consensus size: 18
1377672 AAATTTTGGC
*
1377682 TTTTTTGGCTTCTTTTTT-
1 TTTTTTGCCTT-TTTTTTG
1377700 TTTTTTGCC-TTTTTTTG
1 TTTTTTGCCTTTTTTTTG
1377717 TTTTTT---TTTTGTTTT-
1 TTTTTTGCCTTTT-TTTTG
1377732 TTTTTTGCCTTTTTTTTG
1 TTTTTTGCCTTTTTTTTG
1377750 TTTTTT
1 TTTTTT
1377756 TTTTTGAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
15 9 0.19
16 10 0.21
17 11 0.23
18 18 0.38
ACGTcount: A:0.00, C:0.08, G:0.09, T:0.82
Consensus pattern (18 bp):
TTTTTTGCCTTTTTTTTG
Found at i:1377737 original size:32 final size:33
Alignment explanation
Indices: 1377696--1377759 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
1377686 TTGGCTTCTT
1377696 TTTTTTTTTTGCC-TTTTTTTGTTTTTTTTTTG
1 TTTTTTTTTTGCCTTTTTTTTGTTTTTTTTTTG
1377728 TTTTTTTTTTGCCTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTGCCTTTTTTTTGTTTTTTTTTT
1377760 TGAAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (33 bp):
TTTTTTTTTTGCCTTTTTTTTGTTTTTTTTTTG
Found at i:1377758 original size:11 final size:11
Alignment explanation
Indices: 1377696--1377759 Score: 85
Period size: 11 Copynumber: 5.9 Consensus size: 11
1377686 TTGGCTTCTT
1377696 TTTTTTTTTTG
1 TTTTTTTTTTG
**
1377707 -CCTTTTTTTG
1 TTTTTTTTTTG
1377717 TTTTTTTTTTG
1 TTTTTTTTTTG
1377728 TTTTTTTTTTG
1 TTTTTTTTTTG
**
1377739 CCTTTTTTTTG
1 TTTTTTTTTTG
1377750 TTTTTTTTTT
1 TTTTTTTTTT
1377760 TGAAAAAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 8 0.18
11 36 0.82
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:1384594 original size:24 final size:21
Alignment explanation
Indices: 1384560--1384602 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1384550 TACACAAGAT
*
1384560 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
1384582 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
1384603 AGAATGAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:1393111 original size:6 final size:6
Alignment explanation
Indices: 1393100--1393155 Score: 51
Period size: 7 Copynumber: 8.7 Consensus size: 6
1393090 GATGTAGGAG
*
1393100 TCTTTT TC-TTT TCTTTT CTTTTTCT TCTTTT TCTTCTT TCTTCTT CTCTTTT
1 TCTTTT TCTTTT TCTTTT -TCTTT-T TCTTTT TCTT-TT TCTT-TT -TCTTTT
1393152 TCTT
1 TCTT
1393156 GCTTTTGTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
5 5 0.12
6 14 0.33
7 19 0.44
8 5 0.12
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:1393121 original size:16 final size:16
Alignment explanation
Indices: 1393100--1393155 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
1393090 GATGTAGGAG
1393100 TCTTTTTCTTTTCTTT
1 TCTTTTTCTTTTCTTT
*
1393116 TCTTTTTCTTCT-TTT
1 TCTTTTTCTTTTCTTT
*
1393131 TCTTCTTTC--TTCTTC
1 TCTT-TTTCTTTTCTTT
1393146 TCTTTTTCTT
1 TCTTTTTCTT
1393156 GCTTTTGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 5 0.15
15 13 0.39
16 15 0.45
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TCTTTTTCTTTTCTTT
Found at i:1393129 original size:19 final size:19
Alignment explanation
Indices: 1393100--1393155 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
1393090 GATGTAGGAG
* *
1393100 TCTTTTTCTTTTCTTTTCTT
1 TCTTCTTCTTTT-TCTTCTT
1393120 T-TTCTTCTTTTTCTTCTT
1 TCTTCTTCTTTTTCTTCTT
*
1393138 TCTTCTTCTCTTT-TTCTT
1 TCTTCTTCTTTTTCTTCTT
1393156 GCTTTTGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 12 0.38
19 19 0.59
20 1 0.03
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TCTTCTTCTTTTTCTTCTT
Found at i:1393582 original size:35 final size:35
Alignment explanation
Indices: 1393543--1393641 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
1393533 GGTGGTTATT
*
1393543 TAGGCATGAAATGGTGATAGAAGATGGTAATGATA
1 TAGGCATGAAATGGTGATGGAAGATGGTAATGATA
* * * *
1393578 TAGGCATGTAATGGTAATGGAAGATGGTGATGTTA
1 TAGGCATGAAATGGTGATGGAAGATGGTAATGATA
* * *
1393613 GAGGCGTGAAACTGGAGATGGAAGATGGT
1 TAGGCATGAAA-TGGTGATGGAAGATGGT
1393642 GATGTTTAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
35 38 0.72
36 15 0.28
ACGTcount: A:0.34, C:0.04, G:0.36, T:0.25
Consensus pattern (35 bp):
TAGGCATGAAATGGTGATGGAAGATGGTAATGATA
Found at i:1408506 original size:17 final size:17
Alignment explanation
Indices: 1408484--1408527 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1408474 TGTAGGCTGC
1408484 CATGTGCA-TCATTCAAG
1 CATGTGCACT-ATTCAAG
1408501 CATGTGCACTATTCAAG
1 CATGTGCACTATTCAAG
*
1408518 CATGTACACT
1 CATGTGCACT
1408528 TCATGTGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 24 0.96
18 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (17 bp):
CATGTGCACTATTCAAG
Found at i:1410255 original size:8 final size:8
Alignment explanation
Indices: 1410242--1410303 Score: 67
Period size: 8 Copynumber: 8.0 Consensus size: 8
1410232 ATTTTTTTTT
1410242 CAAAAAAA
1 CAAAAAAA
1410250 CAAAAAAA
1 CAAAAAAA
1410258 C-AAAAAA
1 CAAAAAAA
*
1410265 CAAAAAAGG
1 CAAAAAA-A
1410274 C-AAAAAA
1 CAAAAAAA
**
1410281 -AAAAAGG
1 CAAAAAAA
1410288 CAAAAAAA
1 CAAAAAAA
1410296 CAAAAAAA
1 CAAAAAAA
1410304 GAGCCAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
7 11 0.25
8 32 0.73
9 1 0.02
ACGTcount: A:0.82, C:0.11, G:0.06, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:1410262 original size:6 final size:7
Alignment explanation
Indices: 1410244--1410302 Score: 57
Period size: 7 Copynumber: 7.9 Consensus size: 7
1410234 TTTTTTTTCA
1410244 AAAAAAC
1 AAAAAAC
1410251 AAAAAAAC
1 -AAAAAAC
1410259 AAAAAAC
1 AAAAAAC
1410266 AAAAAAGGC
1 AAAAAA--C
1410275 AAAAAA-
1 AAAAAAC
*
1410281 AAAAAGGC
1 AAAAA-AC
1410289 AAAAAAAC
1 -AAAAAAC
1410297 AAAAAA
1 AAAAAA
1410303 AGAGCCAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
6 5 0.11
7 19 0.43
8 8 0.18
9 12 0.27
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:1410269 original size:14 final size:14
Alignment explanation
Indices: 1410244--1410302 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 14
1410234 TTTTTTTTCA
1410244 AAAAAACAAAAAAAC
1 AAAAAAC-AAAAAAC
1410259 AAAAAACAAAAAAGGC
1 AAAAAACAAAAAA--C
*
1410275 AAAAAA-AAAAAGGC
1 AAAAAACAAAAA-AC
1410289 AAAAAAACAAAAAA
1 -AAAAAACAAAAAA
1410303 AGAGCCAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 7 0.19
15 18 0.49
16 12 0.32
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAAAAC
Found at i:1410292 original size:13 final size:14
Alignment explanation
Indices: 1410260--1410300 Score: 64
Period size: 14 Copynumber: 2.8 Consensus size: 14
1410250 CAAAAAAACA
1410260 AAAAACAAAAAAGGC
1 AAAAA-AAAAAAGGC
1410275 AAAAAAAAAAAGGC
1 AAAAAAAAAAAGGC
1410289 AAAAAAACAAAA
1 AAAAAAA-AAAA
1410301 AAAGAGCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGGC
Found at i:1410321 original size:20 final size:20
Alignment explanation
Indices: 1410277--1410314 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1410267 AAAAAGGCAA
*
1410277 AAAAAAAAAGGCAAAAAAAC
1 AAAAAAAAAGCCAAAAAAAC
*
1410297 AAAAAAAGAGCCAAAAAA
1 AAAAAAAAAGCCAAAAAA
1410315 GCCAAAATTT
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:0.79, C:0.11, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGCCAAAAAAAC
Found at i:1414886 original size:32 final size:33
Alignment explanation
Indices: 1414825--1414891 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 33
1414815 CACAAAAATA
* *
1414825 AAGAAAGAAATGATTAAAATGGAATATGGA-AG
1 AAGAAAGAAATGATTAAAATAGAAAATGGATAG
1414857 AAGAAAGGAAATGA-TAAGAA-AGAAAATGGATAG
1 AAGAAA-GAAATGATTAA-AATAGAAAATGGATAG
1414890 AA
1 AA
1414892 ATGCTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.60, C:0.00, G:0.25, T:0.15
Consensus pattern (33 bp):
AAGAAAGAAATGATTAAAATAGAAAATGGATAG
Found at i:1421807 original size:19 final size:21
Alignment explanation
Indices: 1421783--1421834 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1421773 CGGCCAAGAG
*
1421783 CATGTATCTTCA-TTAAAA-T
1 CATGTATTTTCATTTAAAAGT
1421802 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
1421823 CATGTATTTTCA
1 CATGTATTTTCA
1421835 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 6 0.20
21 13 0.43
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:1422569 original size:5 final size:5
Alignment explanation
Indices: 1422561--1422586 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1422551 GAGAAAAATC
1422561 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
1422587 AGAGAAGTTC
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:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:1422656 original size:24 final size:24
Alignment explanation
Indices: 1422629--1422680 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
1422619 AAGTGCTCTA
1422629 CCATTGCAAAATACATCAAAGAGG
1 CCATTGCAAAATACATCAAAGAGG
1422653 CCATTGCAAAATACATCAAAGAGG
1 CCATTGCAAAATACATCAAAGAGG
1422677 CCAT
1 CCAT
1422681 CTACACTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.17
Consensus pattern (24 bp):
CCATTGCAAAATACATCAAAGAGG
Found at i:1425899 original size:18 final size:21
Alignment explanation
Indices: 1425876--1425926 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
1425866 CGGCCAAGAG
*
1425876 CATGTATCTTCA-TT-AAA-T
1 CATGTATTTTCATTTAAAAGT
1425894 CATGTATTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
1425915 CATGTATTTTCA
1 CATGTATTTTCA
1425927 AAGGGTTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 11 0.38
19 2 0.07
20 3 0.10
21 13 0.45
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:1434097 original size:13 final size:13
Alignment explanation
Indices: 1434075--1434104 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1434065 CATAAACACC
1434075 TTTC-ACATACCT
1 TTTCAACATACCT
1434087 TTTCAACATACCT
1 TTTCAACATACCT
1434100 TTTCA
1 TTTCA
1434105 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:1439437 original size:11 final size:11
Alignment explanation
Indices: 1439421--1439445 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1439411 AATACAAAAA
1439421 GAAGTGCAAGT
1 GAAGTGCAAGT
1439432 GAAGTGCAAGT
1 GAAGTGCAAGT
1439443 GAA
1 GAA
1439446 AGAAAAACAA
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:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (11 bp):
GAAGTGCAAGT
Found at i:1456188 original size:12 final size:11
Alignment explanation
Indices: 1456164--1456214 Score: 59
Period size: 11 Copynumber: 4.4 Consensus size: 11
1456154 TTTTTTCTTC
1456164 AAAAAAACAAAA
1 AAAAAAAC-AAA
1456176 ACAAAAAACAAA
1 A-AAAAAACAAA
1456188 AAAAAAGAC-AA
1 AAAAAA-ACAAA
1456199 AAAAAAACTAAA
1 AAAAAAAC-AAA
1456211 AAAA
1 AAAA
1456215 GCCAAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.06
11 13 0.37
12 13 0.37
13 7 0.20
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:1456214 original size:13 final size:12
Alignment explanation
Indices: 1456164--1456205 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
1456154 TTTTTTCTTC
1456164 AAAAAAACAAAA
1 AAAAAAACAAAA
1456176 ACAAAAAACAAAA
1 A-AAAAAACAAAA
*
1456189 AAAAAGACAAAA
1 AAAAAAACAAAA
1456201 AAAAA
1 AAAAA
1456206 CTAAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:1456221 original size:21 final size:22
Alignment explanation
Indices: 1456164--1456214 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1456154 TTTTTTCTTC
* *
1456164 AAAAAAACAAAAACAAAAAACAA
1 AAAAAAAGACAAA-AAAAAACAA
*
1456187 AAAAAAAGACAAAAAAAAACTA
1 AAAAAAAGACAAAAAAAAACAA
1456209 AAAAAA
1 AAAAAA
1456215 GCCAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (22 bp):
AAAAAAAGACAAAAAAAAACAA
Found at i:1487837 original size:14 final size:14
Alignment explanation
Indices: 1487806--1487847 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1487796 AAAAAAAGTC
**
1487806 AGAAAAGAAGAACT
1 AGAAAAGAAGAAAA
1487820 AGAAAAGAAGAAAA
1 AGAAAAGAAGAAAA
1487834 AG-AAAGAAAGAAAA
1 AGAAAAG-AAGAAAA
1487848 GTTGGAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (14 bp):
AGAAAAGAAGAAAA
Found at i:1490963 original size:90 final size:91
Alignment explanation
Indices: 1490809--1490990 Score: 258
Period size: 90 Copynumber: 2.0 Consensus size: 91
1490799 CCTAGAACAC
* *
1490809 CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCTTTCATAAGGATCATTTAGGCGCCAAGATG
1 CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTGCATAAGGATCATTTAGGCGCCAAGATG
* * *
1490874 AATAGTTCTCTCCCTATTCGGCCAAG
66 AAGAGCTATCTCCCTATTCGGCCAAG
** ** * *
1490900 CCATGTGTTTTGCATATGAACAG-CCCCATGTGCCTTGCATGTGGTTTATTTAGGCGCCAAGATG
1 CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTGCATAAGGATCATTTAGGCGCCAAGATG
1490964 AAGAGCTATCTCCCTATTCGGCCAAG
66 AAGAGCTATCTCCCTATTCGGCCAAG
1490990 C
1 C
1490991 ATCATTTCCC
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
90 60 0.75
91 20 0.25
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (91 bp):
CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTGCATAAGGATCATTTAGGCGCCAAGATG
AAGAGCTATCTCCCTATTCGGCCAAG
Found at i:1497985 original size:42 final size:41
Alignment explanation
Indices: 1497938--1498019 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 41
1497928 TTGTTGGACA
*
1497938 TTGCTTCTTCCACCAAAACTCTGATTAACGCTTGATGTAAGT
1 TTGCTTCTTCCACCAAAACTCTGATT-ACACTTGATGTAAGT
* * *
1497980 TTGCTTCTTCTACCAAAGCTCTGATTCCACTTGATGTAAG
1 TTGCTTCTTCCACCAAAACTCTGATTACACTTGATGTAAG
1498020 GCATTTCTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 12 0.33
42 24 0.67
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (41 bp):
TTGCTTCTTCCACCAAAACTCTGATTACACTTGATGTAAGT
Found at i:1498630 original size:11 final size:11
Alignment explanation
Indices: 1498614--1498639 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1498604 TGGCACATAA
1498614 TTGAACATATT
1 TTGAACATATT
1498625 TTGAACATATT
1 TTGAACATATT
1498636 TTGA
1 TTGA
1498640 GCACAATTTC
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:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (11 bp):
TTGAACATATT
Found at i:1501005 original size:17 final size:17
Alignment explanation
Indices: 1500985--1501025 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1500975 ACTATTTCCC
1500985 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
1501002 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
1501019 TTAATGA
1 TAAATGA
1501026 CCAACATACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:1511845 original size:19 final size:20
Alignment explanation
Indices: 1511804--1511854 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1511794 GAAACCCCTT
*
1511804 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
1511824 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
1511843 TGAAGATACATG
1 TGAAAATACATG
1511855 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:1515245 original size:5 final size:5
Alignment explanation
Indices: 1515235--1515280 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
1515225 GAACTTCTCT
* *
1515235 TTTTC TTTTC TTTTC TTTTC --TTC TTTTC TTCT- TTTTC TCTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1515281 TGCACTCCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
3 3 0.09
4 3 0.09
5 28 0.82
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:1515248 original size:11 final size:11
Alignment explanation
Indices: 1515232--1515281 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
1515222 TTTGAACTTC
*
1515232 TCTTTTTCTTT
1 TCTTTTTCTCT
*
1515243 TC-TTTTCTTT
1 TCTTTTTCTCT
1515253 TCTTCTTT-TCT
1 TCTT-TTTCTCT
1515264 TCTTTTTCTCT
1 TCTTTTTCTCT
1515275 TCTTTTT
1 TCTTTTT
1515282 GCACTCCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
10 13 0.37
11 19 0.54
12 3 0.09
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TCTTTTTCTCT
Found at i:1515258 original size:8 final size:8
Alignment explanation
Indices: 1515228--1515269 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
1515218 TCTTTTTGAA
1515228 CTTCTCTTT
1 CTTCT-TTT
1515237 -TTCTTTT
1 CTTCTTTT
1515244 CTTTTCTTTT
1 C--TTCTTTT
1515254 CTTCTTTT
1 CTTCTTTT
1515262 CTTCTTTT
1 CTTCTTTT
1515270 TCTCTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 3 0.10
8 19 0.63
10 8 0.27
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
CTTCTTTT
Found at i:1516039 original size:19 final size:20
Alignment explanation
Indices: 1515998--1516048 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1515988 GAAACCCCTT
*
1515998 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
1516018 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
1516037 TGAAGATACATG
1 TGAAAATACATG
1516049 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:1516998 original size:30 final size:31
Alignment explanation
Indices: 1516958--1517017 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
1516948 ACATGCTGCC
**
1516958 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
1516989 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
1517018 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:1518900 original size:90 final size:91
Alignment explanation
Indices: 1518755--1518927 Score: 267
Period size: 90 Copynumber: 1.9 Consensus size: 91
1518745 CCCATGTGCC
* * * *
1518755 TTGCATATGACCAGCCCCCATGTGCCTTGCATGAGGATCATTTAGGCGCCAAGATGAAGAGTTCT
1 TTGCATATGAACAGCCCCCATGTACCTTGCATGAGGATCATTTAGGCGCCAAGATGAAGAGCTAT
1518820 CTCCCTATTCGGCCAAGCCATGTTGT
66 CTCCCTATTCGGCCAAGCCATGTTGT
* * * *
1518846 TTGCATGTGAACAG-CCCCATGTACCTTGCATGTGGTTTATTTAGGCGCCAAGATGAAGAGCTAT
1 TTGCATATGAACAGCCCCCATGTACCTTGCATGAGGATCATTTAGGCGCCAAGATGAAGAGCTAT
1518910 CTCCCTATTCGGCCAAGC
66 CTCCCTATTCGGCCAAGC
1518928 ATCATTTCCC
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 62 0.84
91 12 0.16
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (91 bp):
TTGCATATGAACAGCCCCCATGTACCTTGCATGAGGATCATTTAGGCGCCAAGATGAAGAGCTAT
CTCCCTATTCGGCCAAGCCATGTTGT
Found at i:1519734 original size:14 final size:14
Alignment explanation
Indices: 1519703--1519744 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1519693 AAAAAAAGTC
**
1519703 AGAAAAGAAGAACT
1 AGAAAAGAAGAAAA
1519717 AGAAAAGAAGAAAA
1 AGAAAAGAAGAAAA
1519731 AG-AAAGAAAGAAAA
1 AGAAAAG-AAGAAAA
1519745 GTTGGAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (14 bp):
AGAAAAGAAGAAAA
Found at i:1520985 original size:24 final size:21
Alignment explanation
Indices: 1520951--1520993 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1520941 TCCACAAGAT
*
1520951 ATGTCCTTTGACATTTCAAATG
1 ATGTCCTTTGA-AATTCAAATG
1520973 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
1520994 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAATG
Found at i:1522895 original size:90 final size:91
Alignment explanation
Indices: 1522750--1522922 Score: 258
Period size: 90 Copynumber: 1.9 Consensus size: 91
1522740 CCCATGTTCC
* * * *
1522750 TTGCATATGACCAGCCCTCATGTGCCTTGCATAAGGATCATTTAGGTGCCAAGATGAAGAGTTCT
1 TTGCATATGAACAGCCCTCATGTGCCTTGCATAAGGATCATTTAGGCGCCAAGATGAAGAGCTAT
1522815 CTCCCTATTCGGCCAAGCCATGTGTT
66 CTCCCTATTCGGCCAAGCCATGTGTT
* ** * *
1522841 TTGCATGTGAACAGCCC-CATGTGCCTTGCATGTGGTTTATTTAGGCGCCAAGATGAAGAGCTAT
1 TTGCATATGAACAGCCCTCATGTGCCTTGCATAAGGATCATTTAGGCGCCAAGATGAAGAGCTAT
1522905 CTCCCTATTCGGCCAAGC
66 CTCCCTATTCGGCCAAGC
1522923 ATCATTTCCC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 58 0.79
91 15 0.21
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (91 bp):
TTGCATATGAACAGCCCTCATGTGCCTTGCATAAGGATCATTTAGGCGCCAAGATGAAGAGCTAT
CTCCCTATTCGGCCAAGCCATGTGTT
Found at i:1523729 original size:14 final size:14
Alignment explanation
Indices: 1523698--1523739 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1523688 AAAAAAAGTC
**
1523698 AGAAAAGAAGAACT
1 AGAAAAGAAGAAAA
1523712 AGAAAAGAAGAAAA
1 AGAAAAGAAGAAAA
1523726 AG-AAAGAAAGAAAA
1 AGAAAAG-AAGAAAA
1523740 GTTGGAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (14 bp):
AGAAAAGAAGAAAA
Found at i:1524943 original size:24 final size:21
Alignment explanation
Indices: 1524909--1524951 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1524899 TCCACAAGAT
*
1524909 ATGTCCTTTGACATTTCAAATG
1 ATGTCCTTTGA-AATTCAAATG
1524931 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
1524952 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAATG
Found at i:1526855 original size:90 final size:91
Alignment explanation
Indices: 1526710--1526882 Score: 258
Period size: 90 Copynumber: 1.9 Consensus size: 91
1526700 CCCATGTTCC
* * * *
1526710 TTGCATATGACCAGCCCTCATGTGCCTTGCATAAGGATCATTTAGGTGCCAAGATGAAGAGTTCT
1 TTGCATATGAACAGCCCTCATGTGCCTTGCATAAGGATCATTTAGGCGCCAAGATGAAGAGCTAT
1526775 CTCCCTATTCGGCCAAGCCATGTGTT
66 CTCCCTATTCGGCCAAGCCATGTGTT
* ** * *
1526801 TTGCATGTGAACAGCCC-CATGTGCCTTGCATGTGGTTTATTTAGGCGCCAAGATGAAGAGCTAT
1 TTGCATATGAACAGCCCTCATGTGCCTTGCATAAGGATCATTTAGGCGCCAAGATGAAGAGCTAT
1526865 CTCCCTATTCGGCCAAGC
66 CTCCCTATTCGGCCAAGC
1526883 ATCATTTCCC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 58 0.79
91 15 0.21
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (91 bp):
TTGCATATGAACAGCCCTCATGTGCCTTGCATAAGGATCATTTAGGCGCCAAGATGAAGAGCTAT
CTCCCTATTCGGCCAAGCCATGTGTT
Found at i:1533559 original size:10 final size:10
Alignment explanation
Indices: 1533536--1533567 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
1533526 TTTCGTATTT
1533536 TCACTTGCAAC
1 TCACTTG-AAC
1533547 TCACTTGAAC
1 TCACTTGAAC
1533557 TCACTTGAAC
1 TCACTTGAAC
1533567 T
1 T
1533568 TCTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (10 bp):
TCACTTGAAC
Found at i:1533655 original size:42 final size:41
Alignment explanation
Indices: 1533608--1533689 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 41
1533598 TTGTTGGACA
* *
1533608 TTGCTTCTTCCACCAAAACTCTGATTACCTCTTGATGTAAGT
1 TTGCTTCTTCAACCAAAACTCTGATT-CCACTTGATGTAAGT
*
1533650 TTGCTTCTTCAACCAAAGCTCTGATTCCACTTGATGTAAG
1 TTGCTTCTTCAACCAAAACTCTGATTCCACTTGATGTAAG
1533690 GCTTTTCTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 13 0.35
42 24 0.65
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (41 bp):
TTGCTTCTTCAACCAAAACTCTGATTCCACTTGATGTAAGT
Found at i:1539538 original size:11 final size:11
Alignment explanation
Indices: 1539524--1539579 Score: 51
Period size: 13 Copynumber: 4.7 Consensus size: 11
1539514 TCTTTTTGAA
1539524 TTCTTTTTCTT
1 TTCTTTTTCTT
1539535 TTCTTTTCTTCTT
1 TTC-TTT-TTCTT
*
1539548 TTCTTCTTCTTTT
1 TTCTT-TT-TCTT
1539561 TGTCTTTTTC-T
1 T-TCTTTTTCTT
1539572 TTCTTTTT
1 TTCTTTTT
1539580 GCACTCCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 7 0.18
11 5 0.13
12 7 0.18
13 15 0.39
14 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:1539548 original size:19 final size:18
Alignment explanation
Indices: 1539524--1539579 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
1539514 TCTTTTTGAA
1539524 TTCTTTTTCTTTTCTTTT
1 TTCTTTTTCTTTTCTTTT
1539542 CTTC-TTTTCTTCTTCTTTT
1 -TTCTTTTTCTT-TTCTTTT
1539561 TGTCTTTTTC-TTTCTTTT
1 T-TCTTTTTCTTTTCTTTT
1539579 T
1 T
1539580 GCACTCCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 16 0.47
19 13 0.38
20 5 0.15
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (18 bp):
TTCTTTTTCTTTTCTTTT
Found at i:1547200 original size:18 final size:19
Alignment explanation
Indices: 1547177--1547229 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
1547167 TTTGAATTCT
1547177 TTTTCTTTTCTTTTCT-TC-
1 TTTTCTTTTCTTTT-TGTCA
1547195 TTTTCTTCTTCTTTTTGTCA
1 TTTTCTT-TTCTTTTTGTCA
1547215 TTTTC-TTTCTTTTTG
1 TTTTCTTTTCTTTTTG
1547230 CACTCCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 17 0.53
19 10 0.31
20 5 0.16
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTCTTTTCTTTTTGTCA
Found at i:1550082 original size:17 final size:17
Alignment explanation
Indices: 1550062--1550102 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1550052 ACTACTTCCC
1550062 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
1550079 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
*
1550096 TTAATGA
1 TAAATGA
1550103 CCAACATACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:1558761 original size:12 final size:12
Alignment explanation
Indices: 1558744--1558772 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1558734 GTGCTGCCAA
1558744 CTTTTTTTTCTT
1 CTTTTTTTTCTT
1558756 CTTTTTTTTCTT
1 CTTTTTTTTCTT
1558768 CTTTT
1 CTTTT
1558773 GAGTGTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
CTTTTTTTTCTT
Found at i:1561581 original size:35 final size:34
Alignment explanation
Indices: 1561542--1561643 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 34
1561532 ATTGGTGGTT
*
1561542 ATATAGGCGTGAAATGGTGATAGAAGATGGTAATG
1 ATATAGGCGTGAAATGGT-ATGGAAGATGGTAATG
* * *
1561577 ATATAGACGTGCAATGGTAATGGAAGATGGTGATG
1 ATATAGGCGTGAAATGGT-ATGGAAGATGGTAATG
* *
1561612 TTATAGGCATGAAAATGGCTATGGAAGATGGT
1 ATATAGGCGTG-AAATGG-TATGGAAGATGGT
1561644 GATGTTTAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
35 38 0.68
36 17 0.30
37 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.26
Consensus pattern (34 bp):
ATATAGGCGTGAAATGGTATGGAAGATGGTAATG
Found at i:1564938 original size:10 final size:10
Alignment explanation
Indices: 1564925--1564959 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
1564915 AAAGGCAAAA
1564925 AAAAAAAGAC
1 AAAAAAAGAC
*
1564935 AAAAAAAGGC
1 AAAAAAAGAC
1564945 AAAAAAAGA-
1 AAAAAAAGAC
1564954 AAAAAA
1 AAAAAA
1564960 TCCAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAC
Found at i:1572395 original size:16 final size:16
Alignment explanation
Indices: 1572364--1572410 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
1572354 TGGTAATGAA
1572364 ATAAGAAAAGATGAAA-G
1 ATAA-AAAA-ATGAAATG
*
1572381 AATAAAGAAATGAAATG
1 -ATAAAAAAATGAAATG
1572398 ATAAAAAAATGAA
1 ATAAAAAAATGAA
1572411 GATAACTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 18 0.69
17 4 0.15
18 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (16 bp):
ATAAAAAAATGAAATG
Found at i:1572623 original size:21 final size:22
Alignment explanation
Indices: 1572596--1572646 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 22
1572586 GTTGTAGGAG
*
1572596 TCTTTTTCTT-TTCTTT-TTGT
1 TCTTTTTTTTCTTCTTTCTTGT
1572616 T-TTTTTTTTCTTCTTTCTTGT
1 TCTTTTTTTTCTTCTTTCTTGT
1572637 TGCTTTTTTT
1 T-CTTTTTTT
1572647 GTTGTAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.27
20 7 0.27
21 5 0.19
23 7 0.27
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (22 bp):
TCTTTTTTTTCTTCTTTCTTGT
Found at i:1572643 original size:24 final size:22
Alignment explanation
Indices: 1572598--1572646 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
1572588 TGTAGGAGTC
* *
1572598 TTTTTCTTTTCTTTTTGTTTTT
1 TTTTTCTTTTCTTGTTGCTTTT
1572620 TTTTTCTTCTTTCTTGTTGCTTTT
1 TTTTTC-T-TTTCTTGTTGCTTTT
1572644 TTT
1 TTT
1572647 GTTGTAGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 1 0.04
24 16 0.70
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (22 bp):
TTTTTCTTTTCTTGTTGCTTTT
Found at i:1576219 original size:15 final size:15
Alignment explanation
Indices: 1576199--1576227 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1576189 CAGAGAAGAT
1576199 GGAGTAGAAGATGAC
1 GGAGTAGAAGATGAC
1576214 GGAGTAGAAGATGA
1 GGAGTAGAAGATGA
1576228 GGAAGGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.41, T:0.14
Consensus pattern (15 bp):
GGAGTAGAAGATGAC
Found at i:1577932 original size:13 final size:13
Alignment explanation
Indices: 1577916--1577949 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1577906 ATTTTGACTT
1577916 TTTTTTTTTTGCC
1 TTTTTTTTTTGCC
*
1577929 TTTTTTCTTTGCC
1 TTTTTTTTTTGCC
1577942 TTTTTTTT
1 TTTTTTTT
1577950 GTTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTTGCC
Found at i:1577957 original size:10 final size:11
Alignment explanation
Indices: 1577917--1577967 Score: 61
Period size: 10 Copynumber: 4.6 Consensus size: 11
1577907 TTTTGACTTT
1577917 TTTTTTTTTGCC
1 TTTTTTTTTG-C
1577929 TTTTTTCTTTGC
1 TTTTTT-TTTGC
*
1577941 CTTTTTTTTG-
1 TTTTTTTTTGC
1577951 TTTTTTTTTG-
1 TTTTTTTTTGC
1577961 TTTTTTT
1 TTTTTTT
1577968 GAAAAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
10 16 0.44
11 4 0.11
12 12 0.33
13 4 0.11
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTGC
Found at i:1592476 original size:29 final size:29
Alignment explanation
Indices: 1592420--1592527 Score: 153
Period size: 29 Copynumber: 3.6 Consensus size: 29
1592410 ATTCTTAGTG
* *
1592420 AGCTGTTTGTGTCTCCCAAATGCTCCACCA
1 AGCTGTTTGTCT-TCCAAAATGCTCCACCA
*
1592450 AGCTGTTTGTCTTCCAAAATGATCCACCA
1 AGCTGTTTGTCTTCCAAAATGCTCCACCA
*
1592479 AGCTGTTTGTCTTCCAAAATGCTCCACAA
1 AGCTGTTTGTCTTCCAAAATGCTCCACCA
1592508 AGCTGTATGTGTCTTCCAAA
1 AGCTGT-T-TGTCTTCCAAA
1592528 TACTTCATCT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
29 48 0.68
30 12 0.17
31 11 0.15
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (29 bp):
AGCTGTTTGTCTTCCAAAATGCTCCACCA
Found at i:1594332 original size:14 final size:13
Alignment explanation
Indices: 1594315--1594364 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
1594305 GTGCAAAAAG
1594315 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
1594329 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
1594342 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
1594353 AAAGAAAAAGAA
1 AAAGAAAAAGAA
1594365 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:1594361 original size:19 final size:18
Alignment explanation
Indices: 1594309--1594364 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
1594299 ATTGGAGTGC
1594309 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
1594326 CAAAAAGAAGAAG-AAAAGA
1 -AAAAAGAA-AAGAAAAAGA
1594345 AGAAAAGAAAAGAAAAAGA
1 A-AAAAGAAAAGAAAAAGA
1594364 A
1 A
1594365 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 21 0.62
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:1594362 original size:11 final size:11
Alignment explanation
Indices: 1594309--1594364 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
1594299 ATTGGAGTGC
1594309 AAAAAG-AAAG
1 AAAAAGAAAAG
1594319 AAAAAGACAAAAAG
1 AAAAAG---AAAAG
*
1594333 AAGAAGAAAAG
1 AAAAAGAAAAG
1594344 AAGAAAAGAAAAG
1 -A-AAAAGAAAAG
1594357 AAAAAGAA
1 AAAAAGAA
1594365 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 6 0.16
11 12 0.32
12 2 0.05
13 9 0.24
14 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:1598109 original size:5 final size:5
Alignment explanation
Indices: 1598077--1598125 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
1598067 TTGGAGTGCA
1598077 AAAAG -AAAG AAAAG ACAAAAG AAGAAG AAAAG --AAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG --AAAAG AA-AAG AAAAG AAAAG AAAAG AAAAG
1598122 AAAA
1 AAAA
1598126 AGAATTCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 3 0.08
4 4 0.11
5 21 0.55
6 5 0.13
7 5 0.13
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1598129 original size:19 final size:18
Alignment explanation
Indices: 1598077--1598125 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
1598067 TTGGAGTGCA
1598077 AAAAG-AAAGAAAAG-AC
1 AAAAGAAAAGAAAAGAAC
*
1598093 AAAAGAAGAAGAAAAGAAG
1 AAAAGAA-AAGAAAAGAAC
1598112 AAAAGAAAAGAAAA
1 AAAAGAAAAGAAAA
1598126 AGAATTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 5 0.17
17 1 0.03
18 15 0.52
19 8 0.28
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAGAAAAGAAC
Found at i:1601863 original size:14 final size:13
Alignment explanation
Indices: 1601846--1601895 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
1601836 GTGCAAAAAG
1601846 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
1601860 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
1601873 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
1601884 AAAGAAAAAGAA
1 AAAGAAAAAGAA
1601896 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:1601892 original size:19 final size:18
Alignment explanation
Indices: 1601840--1601895 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
1601830 ATTGGAGTGC
1601840 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
1601857 CAAAAAGAAGAAG-AAAAGA
1 -AAAAAGAA-AAGAAAAAGA
1601876 AGAAAAGAAAAGAAAAAGA
1 A-AAAAGAAAAGAAAAAGA
1601895 A
1 A
1601896 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 21 0.62
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:1601893 original size:11 final size:11
Alignment explanation
Indices: 1601840--1601895 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
1601830 ATTGGAGTGC
1601840 AAAAAG-AAAG
1 AAAAAGAAAAG
1601850 AAAAAGACAAAAAG
1 AAAAAG---AAAAG
*
1601864 AAGAAGAAAAG
1 AAAAAGAAAAG
1601875 AAGAAAAGAAAAG
1 -A-AAAAGAAAAG
1601888 AAAAAGAA
1 AAAAAGAA
1601896 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 6 0.16
11 12 0.32
12 2 0.05
13 9 0.24
14 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:1605617 original size:19 final size:18
Alignment explanation
Indices: 1605585--1605636 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
1605575 AATTGGAGTG
1605585 CAAAAAG-AAAGAAAAGA
1 CAAAAAGAAAAGAAAAGA
1605602 CAAAAAGAAGAAGAAAAGA
1 CAAAAAGAA-AAGAAAAGA
1605621 -AGAAAAGAAAAGAAAA
1 CA-AAAAGAAAAGAAAA
1605637 AGAATTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.22
18 9 0.28
19 16 0.50
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (18 bp):
CAAAAAGAAAAGAAAAGA
Found at i:1613077 original size:18 final size:18
Alignment explanation
Indices: 1613054--1613106 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
1613044 AATTGGAGTG
1613054 CAAAAAGAAAGAAAAAGA
1 CAAAAAGAAAGAAAAAGA
1613072 CAAAAAG-AAGAAGAAAAGA
1 CAAAAAGAAAG-A-AAAAGA
1613091 -AGAAAAGAAAAGAAAA
1 CA-AAAAG-AAAGAAAA
1613107 GAATTCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
17 3 0.10
18 9 0.30
19 14 0.47
20 1 0.03
21 3 0.10
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (18 bp):
CAAAAAGAAAGAAAAAGA
Found at i:1613082 original size:11 final size:11
Alignment explanation
Indices: 1613061--1613109 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
1613051 GTGCAAAAAG
*
1613061 AAAGAAAAAGA
1 AAAGAAGAAGA
1613072 CAAA-AAGAAGA
1 -AAAGAAGAAGA
1613083 AGAA-AAGAAGA
1 A-AAGAAGAAGA
1613094 AAAGAA-AAGA
1 AAAGAAGAAGA
1613104 AAAGAA
1 AAAGAA
1613110 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 13 0.38
11 18 0.53
12 3 0.09
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAGAAGAAGA
Found at i:1613107 original size:18 final size:17
Alignment explanation
Indices: 1613055--1613109 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
1613045 ATTGGAGTGC
1613055 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAG-AAAAGA
1613072 CAAAAAGAAGAAGAAAAGA
1 -AAAAAGAA-AAGAAAAGA
1613091 AGAAAAGAAAAGAAAAGA
1 A-AAAAGAAAAGAAAAGA
1613109 A
1 A
1613110 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 17 0.50
19 14 0.41
20 3 0.09
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAGA
Found at i:1616692 original size:12 final size:11
Alignment explanation
Indices: 1616667--1616701 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
1616657 AGAAAAAGAC
1616667 AAAAGAAGAAG
1 AAAAGAAGAAG
1616678 AAAAGAAGAAAG
1 AAAAGAAG-AAG
1616690 AAAAGAA-AAG
1 AAAAGAAGAAG
1616700 AA
1 AA
1616702 TTCAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.22
11 8 0.35
12 10 0.43
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAAG
Found at i:1616697 original size:17 final size:16
Alignment explanation
Indices: 1616649--1616701 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 16
1616639 ATTGGAGTGC
1616649 AAAAAG-AAAGAAAAAG
1 AAAAAGAAAAG-AAAAG
1616665 ACAAAAGAAGAAGAAAAG
1 A-AAAAGAA-AAGAAAAG
1616683 AAGAAAGAAAAGAAAAG
1 AA-AAAGAAAAGAAAAG
1616700 AA
1 AA
1616702 TTCAAAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 1 0.03
17 16 0.48
18 13 0.39
19 3 0.09
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAG
Found at i:1625199 original size:15 final size:15
Alignment explanation
Indices: 1625188--1625216 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1625178 ACTCAAAAAG
1625188 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
1625203 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
1625217 GTTGAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:1626452 original size:24 final size:23
Alignment explanation
Indices: 1626413--1626470 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
1626403 GGTGATCCAC
*
1626413 AAGACATGT-CCTTTGACATTTC-A
1 AAGA-ATGTACCTTTGA-AATTCGA
*
1626436 AAGGATGTACCTCTTGAAATTCGA
1 AAGAATGTACCT-TTGAAATTCGA
1626460 AAGAATGTACC
1 AAGAATGTACC
1626471 AATTGAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 4 0.14
23 10 0.34
24 15 0.52
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (23 bp):
AAGAATGTACCTTTGAAATTCGA
Found at i:1627498 original size:20 final size:19
Alignment explanation
Indices: 1627475--1627517 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
1627465 AACCCCTTTG
1627475 AAATACATGATTTTTAATGA
1 AAATACATGA-TTTTAATGA
1627495 AAAT--ATGATTTTAATGA
1 AAATACATGATTTTAATGA
*
1627512 AGATAC
1 AAATAC
1627518 TGCTCTTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 12 0.60
18 4 0.20
20 4 0.20
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (19 bp):
AAATACATGATTTTAATGA
Found at i:1630835 original size:8 final size:8
Alignment explanation
Indices: 1630822--1630849 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1630812 ATCTTTTTCT
1630822 TTTTCTTC
1 TTTTCTTC
1630830 TTTTCTTC
1 TTTTCTTC
1630838 TTTTCTTC
1 TTTTCTTC
1630846 TTTT
1 TTTT
1630850 TGTATTTTCT
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:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTCTTC
Found at i:1630863 original size:17 final size:15
Alignment explanation
Indices: 1630813--1630868 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 15
1630803 CTTTTTGAAA
*
1630813 TCTTTTTCTTTTTCT
1 TCTTTTTGTTTTTCT
1630828 TCTTTTCT-TCTTTTCT
1 TCTTTT-TGT-TTTTCT
1630844 TCTTTTTGTATTTTCTT
1 TCTTTTTGT-TTTTC-T
1630861 TCTTTTTG
1 TCTTTTTG
1630869 CACTCCAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
15 8 0.22
16 19 0.53
17 9 0.25
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (15 bp):
TCTTTTTGTTTTTCT
Found at i:1631632 original size:19 final size:21
Alignment explanation
Indices: 1631589--1631640 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1631579 GAAACCCCTT
1631589 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
1631610 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
1631629 TGAAGATACATG
1 TGAAAATACATG
1631641 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:1632599 original size:150 final size:151
Alignment explanation
Indices: 1632407--1632707 Score: 579
Period size: 150 Copynumber: 2.0 Consensus size: 151
1632397 TGCCTACATG
1632407 CATAACATAAAGAAATAAACTAAGTATATAAACTATATAATGCATATAATATAATGATGTGTATA
1 CATAACATAAAGAAATAAACTAAGTATATAAACTATATAATGCATATAATATAATGATGTGTATA
1632472 TAAAAAAGATGTGAACTATATGTTATAATAA-AATTCATGCATC-TATGATAATGAATGAATATT
66 TAAAAAAGATGTGAACTATATGTTATAATAATAATTCATGCATCATATGATAATGAATGAATATT
1632535 AATATTATAACTATAGATTATA
131 AATATTA-AACTATAGATTATA
1632557 CATAACATAAAGAAATAAACTAAGTATATAAACTATATAATGCATATAATATAATGATGTGTATA
1 CATAACATAAAGAAATAAACTAAGTATATAAACTATATAATGCATATAATATAATGATGTGTATA
1632622 TAAAAAAGATGTGAACTATATGTTATAATAATAATTCATGCATCATATGATAATGAATGAATATT
66 TAAAAAAGATGTGAACTATATGTTATAATAATAATTCATGCATCATATGATAATGAATGAATATT
1632687 AATATTAAACTATAGATTATA
131 AATATTAAACTATAGATTATA
1632708 TACATGAATA
Statistics
Matches: 149, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
150 96 0.64
151 26 0.17
152 27 0.18
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.34
Consensus pattern (151 bp):
CATAACATAAAGAAATAAACTAAGTATATAAACTATATAATGCATATAATATAATGATGTGTATA
TAAAAAAGATGTGAACTATATGTTATAATAATAATTCATGCATCATATGATAATGAATGAATATT
AATATTAAACTATAGATTATA
Found at i:1633528 original size:13 final size:13
Alignment explanation
Indices: 1633510--1633536 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1633500 AACTTCTTGA
1633510 AATGCTTGAGTTC
1 AATGCTTGAGTTC
1633523 AATGCTTGAGTTC
1 AATGCTTGAGTTC
1633536 A
1 A
1633537 TCTCCTGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (13 bp):
AATGCTTGAGTTC
Found at i:1635085 original size:23 final size:24
Alignment explanation
Indices: 1635049--1635095 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
1635039 AAGTTGCTTA
1635049 TTTCATATGTTATAATATAATTAT
1 TTTCATATGTTATAATATAATTAT
* *
1635073 TTTCATATG-TATATTATATTTAT
1 TTTCATATGTTATAATATAATTAT
1635096 AGTTATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTCATATGTTATAATATAATTAT
Found at i:1637970 original size:19 final size:21
Alignment explanation
Indices: 1637927--1637978 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1637917 GAAACCCCTT
1637927 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
1637948 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
1637967 TGAAGATACATG
1 TGAAAATACATG
1637979 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:1640226 original size:43 final size:43
Alignment explanation
Indices: 1640165--1640251 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
1640155 TTGTTCTTTA
1640165 CTCTCCTCTTTGGATCCTATTTCACTCCTCTCATTTTGAACTC
1 CTCTCCTCTTTGGATCCTATTTCACTCCTCTCATTTTGAACTC
1640208 CTCTCCTCTTTGGATCCTATTTCACTCCTCTCATTTTGAACTC
1 CTCTCCTCTTTGGATCCTATTTCACTCCTCTCATTTTGAACTC
1640251 C
1 C
1640252 CAACGTCTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.14, C:0.36, G:0.07, T:0.44
Consensus pattern (43 bp):
CTCTCCTCTTTGGATCCTATTTCACTCCTCTCATTTTGAACTC
Found at i:1641326 original size:8 final size:8
Alignment explanation
Indices: 1641289--1641337 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
1641279 TCTTTTTGAA
1641289 CTTCTCTTT
1 CTTCT-TTT
1641298 -TTCTTTT
1 CTTCTTTT
1641305 CTT-TTCTT
1 CTTCTT-TT
1641313 -TTCTTTT
1 CTTCTTTT
1641320 CTTCTTTT
1 CTTCTTTT
1641328 CTTCTTTT
1 CTTCTTTT
1641336 CT
1 CT
1641338 GATTTTTCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 9 0.25
8 27 0.75
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
CTTCTTTT
Found at i:1641337 original size:13 final size:13
Alignment explanation
Indices: 1641303--1641337 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1641293 TCTTTTTCTT
1641303 TTCTTTTCTTTTC
1 TTCTTTTCTTTTC
1641316 TT-TTCTTCTTTTC
1 TTCTT-TTCTTTTC
1641329 TTCTTTTCT
1 TTCTTTTCT
1641338 GATTTTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.10
13 16 0.80
14 2 0.10
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTCTTTTCTTTTC
Found at i:1641351 original size:5 final size:5
Alignment explanation
Indices: 1641296--1641337 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
1641286 GAACTTCTCT
1641296 TTTTC TTTTC TTTTC TTTTC TTTTC TTCTT- TTCTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC T
1641338 GATTTTTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:1642118 original size:19 final size:21
Alignment explanation
Indices: 1642075--1642126 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1642065 GAAACCCCTT
1642075 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
1642096 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
1642115 TGAAGATACATG
1 TGAAAATACATG
1642127 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:1661349 original size:20 final size:20
Alignment explanation
Indices: 1661324--1661375 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1661314 GAAACCCCTT
*
1661324 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
1661344 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTTAA
*
1661364 TGAAGATACATG
1 TGAAAATACATG
1661376 CTCTTGGACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:1665552 original size:20 final size:20
Alignment explanation
Indices: 1665527--1665578 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1665517 GAAACCCCTT
*
1665527 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
1665547 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTTAA
*
1665567 TGAAGATACATG
1 TGAAAATACATG
1665579 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:1671276 original size:19 final size:19
Alignment explanation
Indices: 1671252--1671293 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1671242 AGCATTTATC
*
1671252 TTCATTAAAATTATGTATT
1 TTCATTAAAATCATGTATT
*
1671271 TTCATTAAAATCATGTGTT
1 TTCATTAAAATCATGTATT
1671290 TTCA
1 TTCA
1671294 AAGGGGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (19 bp):
TTCATTAAAATCATGTATT
Found at i:1671659 original size:11 final size:11
Alignment explanation
Indices: 1671636--1671684 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 11
1671626 ACAATCTGTC
1671636 CATCACCATTAT
1 CATCACCA-TAT
1671648 CA-CACCTATAT
1 CATCACC-ATAT
1671659 CATCACCATATT
1 CATCACCATA-T
1671671 CCATCACCATAT
1 -CATCACCATAT
1671683 CA
1 CA
1671685 CGCCTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 14 0.42
12 9 0.27
13 10 0.30
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:1671691 original size:35 final size:36
Alignment explanation
Indices: 1671634--1671701 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
1671624 ATACAATCTG
1671634 TCCATCACCATTATCACACCTATATCATCACCATAT
1 TCCATCACCATTATCACACCTATATCATCACCATAT
* *
1671670 TCCATCACCA-TATCACGCCTATATTATCACCA
1 TCCATCACCATTATCACACCTATATCATCACCA
1671702 ATTTCTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 20 0.67
36 10 0.33
ACGTcount: A:0.32, C:0.37, G:0.01, T:0.29
Consensus pattern (36 bp):
TCCATCACCATTATCACACCTATATCATCACCATAT
Found at i:1672200 original size:24 final size:24
Alignment explanation
Indices: 1672145--1672193 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1672135 AGTGAAAAAG
* *
1672145 AAAGAAAAGAAAAAGAAGAATCAA
1 AAAGCAAAGAAAAAGAAGAAGCAA
*
1672169 AAAGCAAAGAAAAAG-TGAAGCAA
1 AAAGCAAAGAAAAAGAAGAAGCAA
1672192 AA
1 AA
1672194 TTGCAAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.71, C:0.06, G:0.18, T:0.04
Consensus pattern (24 bp):
AAAGCAAAGAAAAAGAAGAAGCAA
Found at i:1673719 original size:17 final size:18
Alignment explanation
Indices: 1673678--1673720 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
1673668 CCTGCATCAA
1673678 AGAAAAATCAAGAATAGG
1 AGAAAAATCAAGAATAGG
1673696 AGAAAAATCAAGAATAGG
1 AGAAAAATCAAGAATAGG
1673714 AGAAAAA
1 AGAAAAA
1673721 GAATCATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.65, C:0.05, G:0.21, T:0.09
Consensus pattern (18 bp):
AGAAAAATCAAGAATAGG
Found at i:1674971 original size:12 final size:11
Alignment explanation
Indices: 1674949--1674991 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
1674939 ATGTAGGAGA
*
1674949 CTTTTTCTTTT
1 CTTTTTTTTTT
1674960 CTTTTTATTTTT
1 CTTTTT-TTTTT
1674972 CTTCTTTTTTTT
1 CTT-TTTTTTTT
1674984 CTCTTTTT
1 CT-TTTTT
1674992 GTTGCTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.21
12 18 0.64
13 4 0.14
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:1675423 original size:35 final size:37
Alignment explanation
Indices: 1675377--1675456 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 37
1675367 TTTGAGAATT
* *
1675377 TGGTGATGATATAAGCGTGAT-ATGG-TGGTGGACTA
1 TGGTGATGATATAAGCGTGATAATGGAAGATGGACTA
* *
1675412 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAAGCGTGATAATGGAAGATGGACTA
1675449 TGGTGATG
1 TGGTGATG
1675457 GAAATAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 20 0.51
36 4 0.10
37 15 0.38
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAAGCGTGATAATGGAAGATGGACTA
Found at i:1675841 original size:19 final size:20
Alignment explanation
Indices: 1675794--1675844 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1675784 GAAATCCCTT
**
1675794 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
1675814 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
1675833 TGAAGATACATG
1 TGAAAATACATG
1675845 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:1677887 original size:17 final size:18
Alignment explanation
Indices: 1677846--1677888 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
1677836 CCTGCATCAA
1677846 AGAAAAATCAAGAATAGG
1 AGAAAAATCAAGAATAGG
1677864 AGAAAAATCAAGAATAGG
1 AGAAAAATCAAGAATAGG
1677882 AGAAAAA
1 AGAAAAA
1677889 GAATCATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.65, C:0.05, G:0.21, T:0.09
Consensus pattern (18 bp):
AGAAAAATCAAGAATAGG
Found at i:1679139 original size:12 final size:12
Alignment explanation
Indices: 1679116--1679159 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
1679106 GATGTAGGAG
1679116 TCTTTTTA-TTT
1 TCTTTTTATTTT
1679127 TCTTTTTATTTT
1 TCTTTTTATTTT
*
1679139 TCTTCTTTTTTTT
1 TCTT-TTTATTTT
1679152 TCTCTTTT
1 TCT-TTTT
1679160 TGTTGCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 8 0.28
12 7 0.24
13 13 0.45
14 1 0.03
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTTTATTTT
Found at i:1679160 original size:12 final size:12
Alignment explanation
Indices: 1679116--1679160 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
1679106 GATGTAGGAG
1679116 TCTTTTTATTTTC
1 TCTTTTT-TTTTC
1679129 T-TTTTATTTTTC
1 TCTTTT-TTTTTC
1679141 TTCTTTTTTTTTC
1 -TCTTTTTTTTTC
1679154 TCTTTTT
1 TCTTTTT
1679161 GTTGCTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 16 0.55
13 9 0.31
14 4 0.14
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTTTTTTTC
Found at i:1679592 original size:35 final size:37
Alignment explanation
Indices: 1679546--1679625 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 37
1679536 TTTGAGAATT
* *
1679546 TGGTGATGATATAAGCGTGAT-ATGG-TGGTGGACTA
1 TGGTGATGATATAAGCGTGATAATGGAAGATGGACTA
* *
1679581 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAAGCGTGATAATGGAAGATGGACTA
1679618 TGGTGATG
1 TGGTGATG
1679626 GAAATAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 20 0.51
36 4 0.10
37 15 0.38
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAAGCGTGATAATGGAAGATGGACTA
Found at i:1680011 original size:19 final size:20
Alignment explanation
Indices: 1679964--1680014 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1679954 GAAATCCCTT
**
1679964 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
1679984 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
1680003 TGAAGATACATG
1 TGAAAATACATG
1680015 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:1680793 original size:19 final size:21
Alignment explanation
Indices: 1680750--1680801 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1680740 GAAACCCCTT
1680750 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
1680771 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
1680790 TGAAGATACATG
1 TGAAAATACATG
1680802 CTCTTGGCGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:1685130 original size:15 final size:14
Alignment explanation
Indices: 1685110--1685145 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
1685100 TCTTTTTCTT
1685110 TTCTTTTTATTTTTC
1 TTCTTTTT-TTTTTC
1685125 TTCTTTTTTTTTTC
1 TTCTTTTTTTTTTC
1685139 -TCTTTTT
1 TTCTTTTT
1685146 GTTGCTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.33
14 6 0.29
15 8 0.38
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTTTTTTTTTC
Found at i:1685577 original size:35 final size:37
Alignment explanation
Indices: 1685531--1685610 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
1685521 TTTGAGAATT
*
1685531 TGGTGATGATATAGGCGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
1685566 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
1685603 TGGTGATG
1 TGGTGATG
1685611 GAAATAGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 21 0.51
36 4 0.10
37 16 0.39
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:1685995 original size:19 final size:20
Alignment explanation
Indices: 1685948--1685998 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1685938 GAAATCCCTT
**
1685948 TGAAAATACATGATTTTTTA
1 TGAAAATACATGATTTTAAA
1685968 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
1685987 TGAAGATACATG
1 TGAAAATACATG
1685999 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:1692898 original size:17 final size:15
Alignment explanation
Indices: 1692876--1692932 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
1692866 AATTGGAGTG
1692876 CAAAAAGAAAGAAAAGA
1 CAAAAAG-AAGAAAA-A
*
1692893 CAAAAAGAAGAAAATT
1 CAAAAAGAAGAAAA-A
1692909 CAGAAAAGAAGAAAAA
1 CA-AAAAGAAGAAAAA
*
1692925 GAAAAAGA
1 CAAAAAGA
1692933 TTTCAAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 6 0.17
16 10 0.29
17 19 0.54
ACGTcount: A:0.74, C:0.05, G:0.18, T:0.04
Consensus pattern (15 bp):
CAAAAAGAAGAAAAA
Found at i:1692923 original size:26 final size:26
Alignment explanation
Indices: 1692885--1692948 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
1692875 GCAAAAAGAA
*
1692885 AGAAAAGACAAAAAGAAGAAA-A-TTC
1 AGAAAAGAGAAAAAGAA-AAAGATTTC
1692910 AGAAAAGAAGAAAAAGAAAAAGATTTC
1 AGAAAAG-AGAAAAAGAAAAAGATTTC
1692937 A-AAAAGAGAAAA
1 AGAAAAGAGAAAA
1692949 GCAAGCCAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 16 0.46
26 15 0.43
27 4 0.11
ACGTcount: A:0.70, C:0.05, G:0.17, T:0.08
Consensus pattern (26 bp):
AGAAAAGAGAAAAAGAAAAAGATTTC
Done.