Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 201 of 230
Found at i:60233425 original size:41 final size:41
Alignment explanation
Indices: 60233378--60233487 Score: 148
Period size: 41 Copynumber: 2.7 Consensus size: 41
60233368 ATAGCACCAT
*
60233378 TAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAATGCCGC
1 TAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCCGC
* * *
60233419 TAATGCTTGACCTTTTGCAGTGTTTTTCTCATAAACGCTGC
1 TAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCCGC
* * * *
60233460 TACTGCTTTACCTATTGTGGCGTTTTTC
1 TAATGCTTGACCTTTTGCGGCGTTTTTC
60233488 CGTTAGTGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (41 bp):
TAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAACGCCGC
Found at i:60233548 original size:12 final size:12
Alignment explanation
Indices: 60233531--60233556 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60233521 TTTTCCGTCC
60233531 AAACGCCACTAA
1 AAACGCCACTAA
60233543 AAACGCCACTAA
1 AAACGCCACTAA
60233555 AA
1 AA
60233557 CCTTACGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:60238356 original size:9 final size:9
Alignment explanation
Indices: 60238344--60238401 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
60238334 CAAAATTTAT
60238344 ATTTTAAAA
1 ATTTTAAAA
60238353 ATTTTATAAA
1 ATTTTA-AAA
*
60238363 ATTCTAAAA
1 ATTTTAAAA
* *
60238372 A-TATATATA
1 ATTTTA-AAA
60238381 A-TTT-AAA
1 ATTTTAAAA
60238388 ATTTTAAAA
1 ATTTTAAAA
60238397 ATTTT
1 ATTTT
60238402 CTAAAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
7 3 0.08
8 6 0.15
9 23 0.57
10 8 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:60238379 original size:34 final size:31
Alignment explanation
Indices: 60238327--60238399 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 31
60238317 TATATTTAAA
*
60238327 AAAAATTCAAAATTTATAT-TTTAAAAATTTT
1 AAAAATTCAAAATATATATATTT-AAAATTTT
60238358 ATAAAATTCTAAAAATATATATAATTTAAAATTTT
1 A-AAAATTC--AAAATATATAT-ATTTAAAATTTT
60238393 AAAAATT
1 AAAAATT
60238400 TTCTAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
31 1 0.03
32 7 0.19
34 16 0.44
35 9 0.25
36 3 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
AAAAATTCAAAATATATATATTTAAAATTTT
Found at i:60238813 original size:26 final size:27
Alignment explanation
Indices: 60238757--60238822 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
60238747 TTTAACGAGT
* * *
60238757 TTAAAAATAATTATAATTAACTTATTT
1 TTAAAAATAAATATAATTAACTAATTA
60238784 TTAAAAATAAATATTAATT-A-TAATTA
1 TTAAAAATAAATA-TAATTAACTAATTA
*
60238810 TTAAACATAAATA
1 TTAAAAATAAATA
60238823 AATACAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 16 0.47
27 13 0.38
28 5 0.15
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
TTAAAAATAAATATAATTAACTAATTA
Found at i:60239232 original size:16 final size:16
Alignment explanation
Indices: 60239211--60239258 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
60239201 AAAAAAATTA
60239211 TATTTTTCTATCTTTT
1 TATTTTTCTATCTTTT
*
60239227 TATTTTTTTTATCCTTTT
1 TA-TTTTTCTAT-CTTTT
*
60239245 AATTTTTC-ATCTTT
1 TATTTTTCTATCTTT
60239259 CTAACTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.15
16 4 0.15
17 13 0.48
18 6 0.22
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTCTATCTTTT
Found at i:60239239 original size:17 final size:18
Alignment explanation
Indices: 60239208--60239251 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
60239198 ATCAAAAAAA
60239208 TTATATTTTTCTAT-CTTT
1 TTAT-TTTTTCTATCCTTT
*
60239226 TTATTTTTTTTATCCTTT
1 TTATTTTTTCTATCCTTT
*
60239244 TAATTTTT
1 TTATTTTT
60239252 CATCTTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (18 bp):
TTATTTTTTCTATCCTTT
Found at i:60239859 original size:31 final size:31
Alignment explanation
Indices: 60239824--60239886 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
60239814 CAATTTGATC
* *
60239824 ACTGAATTATTCGAAAGTTTTCATTTAAGTT
1 ACTGAACTATTCAAAAGTTTTCATTTAAGTT
*
60239855 ACTGAACTATTCAAAAGTTTTTATTTAAGTT
1 ACTGAACTATTCAAAAGTTTTCATTTAAGTT
60239886 A
1 A
60239887 TTGCCTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (31 bp):
ACTGAACTATTCAAAAGTTTTCATTTAAGTT
Found at i:60242838 original size:5 final size:5
Alignment explanation
Indices: 60242830--60242870 Score: 73
Period size: 5 Copynumber: 8.0 Consensus size: 5
60242820 AACTAAAAAT
60242830 ATAAA ATAAA ATAAA CATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA -ATAAA ATAAA ATAAA ATAAA ATAAA
60242871 TTTCAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 30 0.86
6 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:60242888 original size:26 final size:26
Alignment explanation
Indices: 60242830--60242893 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
60242820 AACTAAAAAT
*
60242830 ATAAAATAAAATAAACATAAAATAAA
1 ATAAAATAAAATAAACATAAAAGAAA
**
60242856 ATAAAATAAAATAAATTTCAAAAGAAA
1 ATAAAATAAAATAAACAT-AAAAGAAA
*
60242883 A-CAAATAAAAT
1 ATAAAATAAAAT
60242894 CAATGATCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 25 0.76
27 8 0.24
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (26 bp):
ATAAAATAAAATAAACATAAAAGAAA
Found at i:60245185 original size:46 final size:44
Alignment explanation
Indices: 60245133--60245626 Score: 535
Period size: 46 Copynumber: 11.6 Consensus size: 44
60245123 TTTGAGTACT
60245133 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TTAGCTACACTTA
60245179 TCTGATCAAGTGACAAAGTGATAA---GT-G---GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTAGCTACACTTA
**
60245216 TCTGATCAAGAAACAAAGTGATAAGT-G--G-T---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTAGCTACACTTA
* **
60245253 TCTGATCACGAAACAAAGTGATAAGT-G--G-T---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTAGCTACACTTA
*
60245290 TCTGATCAAGAGACAAAGTGAT-A-----AG-TAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTAGCTACACTTA
* *
60245327 TCTGATCAAGTGAGAAAGTGATAAGTGATAGTATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TTAGCTACACTTA
*
60245373 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TTAGCTACACTTA
60245419 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TTAGCTACACTTA
* *
60245465 TCTGATCAAGTGAGAAAGTGATAAATGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TTAGCTACACTTA
*
60245511 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG--TTAGCTACACTTA
*
60245557 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTAGCTACACTTA
*
60245602 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
60245627 ATCATACGTA
Statistics
Matches: 411, Mismatches: 21, Indels: 35
0.88 0.04 0.07
Matches are distributed among these distances:
34 2 0.00
36 1 0.00
37 124 0.30
38 2 0.00
39 1 0.00
42 1 0.00
43 16 0.04
44 5 0.01
45 19 0.05
46 240 0.58
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTAGCTACACTTA
Found at i:60245260 original size:74 final size:74
Alignment explanation
Indices: 60245167--60245353 Score: 302
Period size: 74 Copynumber: 2.5 Consensus size: 74
60245157 GTGGTAGTTT
60245167 TAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAA
1 TAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAA
60245232 AGTGATAAG
66 AGTGATAAG
* * * ** * *
60245241 TGGTTACACTTATCTGATCACGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAGACAA
1 TAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAA
60245306 AGTGATAAG
66 AGTGATAAG
*
60245315 TAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTG
1 TAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
60245354 ATAGTATTAG
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 100 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (74 bp):
TAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAA
AGTGATAAG
Found at i:60247864 original size:15 final size:16
Alignment explanation
Indices: 60247830--60247869 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
60247820 AATAACAAGA
*
60247830 AAAATAATATAGATACT
1 AAAATAA-ATAGAAACT
60247847 AAAATAAA-AGAAACT
1 AAAATAAATAGAAACT
60247862 AAAATAAA
1 AAAATAAA
60247870 GTAATAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 1 0.05
17 7 0.32
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAATAAATAGAAACT
Found at i:60253199 original size:5 final size:5
Alignment explanation
Indices: 60253189--60253214 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
60253179 CAATTTTAAA
60253189 TTCTT TTCTT TTCTT TTCTT TTCTT T
1 TTCTT TTCTT TTCTT TTCTT TTCTT T
60253215 CATTGTTCAA
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:60253750 original size:125 final size:125
Alignment explanation
Indices: 60253507--60253824 Score: 444
Period size: 125 Copynumber: 2.5 Consensus size: 125
60253497 GATAAAATTG
* * ** * *
60253507 AAGCAGGATGCTTTATCAGAAGAATTTTTGAAGTCGCGCCGACGTGTACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
60253572 AGGTTCTACAAAAATAATTTTGAGTTGACGTTTTTGAGAAAATAGTAAAAAAAATACTTC
66 AGGTCCTACAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTAAAAAAAATACTTC
* *
60253632 AAGCAGGATGCTTTCTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* ** *
60253697 AGGTCCTGGA-AAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGT-TTAAAAATGCTTC
66 AGGTCCT--ACAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTAAAAAAAATACTTC
*
60253757 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCTCCCAT-GTGGACGCGCTTTTTGCTACA
1 AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCC-TCGTGGACGCGC-TTTTGCTACA
60253821 GTAG
64 GTAG
60253825 CATGTTTGGG
Statistics
Matches: 172, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
125 121 0.70
126 50 0.29
127 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTACAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTAAAAAAAATACTTC
Found at i:60255851 original size:359 final size:359
Alignment explanation
Indices: 60255192--60255881 Score: 1148
Period size: 359 Copynumber: 1.9 Consensus size: 359
60255182 GATTCAGCTA
*** * *
60255192 TGTTAGCTAGCTTGATACTACCCACGGTGAAGGCAGATCCCAGGGCTTTAGTGCCTGTCTTAATT
1 TGTTAGCTAGCTTGATACTACCCACGGTGAAGGCAGATCCCAAAACTTCAGTGCCAGTCTTAATT
* * *
60255257 GCCAATATTCGTAGCCAAATGGGGTACACGCCCTCTTACCGCAAGGCTTGGATAGCTAAGCAGAA
66 ACCAATATTCGTAGCCAAATGAGGTACACACCCTCTTACCGCAAGGCTTGGATAGCTAAGCAGAA
*
60255322 GGCGTTGGAGAAGATGCATAGTGGGTGGGATGCTTCATATAATGAAATATGGCAGTGGTGTCAAG
131 GGCGTTGGAGAAGATGCATAGTGGGTGGGACGCTTCATATAATGAAATATGGCAGTGGTGTCAAG
* * * *
60255387 TGCTAGAGAGATATGTTCCAGATGCTATCACAGACCTTGAAACGGAACATACGTACTACAACGGC
196 TGCTAAAGAGATACGTTCCAGATGCCATCACAGACCTTGAAACAGAACATACGTACTACAACGGC
*
60255452 TGATTGCTACATGGATGCCAAGTGTTCAAAAGCCTGTTTTGGACCTTTAAGCAATACCGAGACGC
261 TGATTGCTACATGGATGCCAAGTGTTCAAAAGCCTGTTTTGGACCTTTAAGCAATACCGAGACAC
60255517 ATTTCCGTATATATTTCCATACGTATTTCCATAC
326 ATTTCCGTATATATTTCCATACGTATTTCCATAC
60255551 TGTTAGCTAGCTTGATACTACCCACGGTGAAGGCAGATCCCAAAACTTCAGTGCCAGTCTTAATT
1 TGTTAGCTAGCTTGATACTACCCACGGTGAAGGCAGATCCCAAAACTTCAGTGCCAGTCTTAATT
*
60255616 ACCAATATTCGTAGCCAAATGAGGTACACACCCTCTTACCGCAATGCTTGGATAGCTAAGCAGAA
66 ACCAATATTCGTAGCCAAATGAGGTACACACCCTCTTACCGCAAGGCTTGGATAGCTAAGCAGAA
60255681 GGCGTTGGAGAAGATGCATAGTGGGTGGGACGCTTCATATAATGAAATATGGCAGTGGTGTCAAG
131 GGCGTTGGAGAAGATGCATAGTGGGTGGGACGCTTCATATAATGAAATATGGCAGTGGTGTCAAG
* * * *
60255746 TGCTAAAGAGATACG-TCCTAGGTGCCATCACAGACCTTGAAACAGAACTTGCGTACTATAACGG
196 TGCTAAAGAGATACGTTCC-AGATGCCATCACAGACCTTGAAACAGAACATACGTACTACAACGG
* * * * *
60255810 CTGATTGCTACGTGGATGCTAAGTGTTCAAATGCCTGTTTTGGACCTTTAAGCAATGCTGAGACA
260 CTGATTGCTACATGGATGCCAAGTGTTCAAAAGCCTGTTTTGGACCTTTAAGCAATACCGAGACA
60255875 CATTTCC
325 CATTTCC
60255882 ATACTACAAG
Statistics
Matches: 306, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
358 3 0.01
359 303 0.99
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (359 bp):
TGTTAGCTAGCTTGATACTACCCACGGTGAAGGCAGATCCCAAAACTTCAGTGCCAGTCTTAATT
ACCAATATTCGTAGCCAAATGAGGTACACACCCTCTTACCGCAAGGCTTGGATAGCTAAGCAGAA
GGCGTTGGAGAAGATGCATAGTGGGTGGGACGCTTCATATAATGAAATATGGCAGTGGTGTCAAG
TGCTAAAGAGATACGTTCCAGATGCCATCACAGACCTTGAAACAGAACATACGTACTACAACGGC
TGATTGCTACATGGATGCCAAGTGTTCAAAAGCCTGTTTTGGACCTTTAAGCAATACCGAGACAC
ATTTCCGTATATATTTCCATACGTATTTCCATAC
Found at i:60257338 original size:14 final size:14
Alignment explanation
Indices: 60257321--60257427 Score: 57
Period size: 14 Copynumber: 7.6 Consensus size: 14
60257311 GTTAAAGGTT
60257321 AGGGTTTAGAGTTA
1 AGGGTTTAGAGTTA
*
60257335 AGGGTTTTAGGGTT-
1 AGGG-TTTAGAGTTA
*
60257349 AGGGTTAAG-GTTA
1 AGGGTTTAGAGTTA
*
60257362 GGGGTTTA-AGGTTA
1 AGGGTTTAGA-GTTA
*
60257376 GTAGGTTTTTA-AGTTA
1 --AGG-GTTTAGAGTTA
*
60257392 AGGG-TTAGGGTT-
1 AGGGTTTAGAGTTA
60257404 AGGGTTTTTA-AGTTA
1 AGGG--TTTAGAGTTA
60257419 AGGGTTTAG
1 AGGGTTTAG
60257428 GGCTTGTCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 26
0.67 0.08 0.25
Matches are distributed among these distances:
12 10 0.14
13 17 0.24
14 18 0.25
15 15 0.21
16 6 0.08
17 5 0.07
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.39
Consensus pattern (14 bp):
AGGGTTTAGAGTTA
Found at i:60257355 original size:34 final size:34
Alignment explanation
Indices: 60257286--60257360 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
60257276 GTTAGGGTTT
* *
60257286 TTAA-GTTAAGAGTTTAGGGTTTTAAGTTAAAGG
1 TTAAGGTTTAGAGTTAAGGGTTTTAAGTTAAAGG
* * *
60257319 TTAGGGTTTAGAGTTAAGGGTTTTAGGGTT-AGGG
1 TTAAGGTTTAGAGTTAAGGGTTTTA-AGTTAAAGG
60257353 TTAAGGTT
1 TTAAGGTT
60257361 AGGGGTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
33 3 0.09
34 28 0.82
35 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (34 bp):
TTAAGGTTTAGAGTTAAGGGTTTTAAGTTAAAGG
Found at i:60257413 original size:27 final size:26
Alignment explanation
Indices: 60257317--60257429 Score: 113
Period size: 27 Copynumber: 4.1 Consensus size: 26
60257307 TTAAGTTAAA
60257317 GGTTAGGGTTTAGAGTTAAGGGTTTTAG
1 GGTTAGGGTTTA-AGTTAAGGG-TTTAG
* *
60257345 GGTTAGGG-TTAAGGTTAGGGGTTTAA
1 GGTTAGGGTTTAA-GTTAAGGGTTTAG
60257371 GGTTAGTAGGTTTTTAAGTTAAGGG-TTAG
1 GGTTAG--GG--TTTAAGTTAAGGGTTTAG
60257400 GGTTAGGGTTTTTAAGTTAAGGGTTTAG
1 GGTTAGGG--TTTAAGTTAAGGGTTTAG
60257428 GG
1 GG
60257430 CTTGTCAATT
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
26 11 0.15
27 27 0.36
28 16 0.22
29 9 0.12
30 7 0.09
31 4 0.05
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (26 bp):
GGTTAGGGTTTAAGTTAAGGGTTTAG
Found at i:60258671 original size:7 final size:7
Alignment explanation
Indices: 60258661--60258686 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
60258651 TTATATACAT
60258661 AATACTA
1 AATACTA
60258668 AATACTA
1 AATACTA
60258675 AATACTA
1 AATACTA
60258682 AATAC
1 AATAC
60258687 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:60258892 original size:20 final size:20
Alignment explanation
Indices: 60258855--60258892 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60258845 ATTATTTTTA
*
60258855 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
60258875 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
60258893 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:60260321 original size:11 final size:11
Alignment explanation
Indices: 60260305--60260329 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60260295 AAAGAATTAG
60260305 ATTATGACATC
1 ATTATGACATC
60260316 ATTATGACATC
1 ATTATGACATC
60260327 ATT
1 ATT
60260330 TATGCCATGT
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (11 bp):
ATTATGACATC
Found at i:60261498 original size:21 final size:22
Alignment explanation
Indices: 60261467--60261557 Score: 132
Period size: 22 Copynumber: 4.2 Consensus size: 22
60261457 AAATTCAATA
60261467 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
60261489 TCAA-TTCCTTTC-AAAATTCTC
1 TCAATTTCC-TTCAAAAATTCTC
* *
60261510 TCAATTCCCTTCAAAATTTCTC
1 TCAATTTCCTTCAAAAATTCTC
*
60261532 TCAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
60261554 TCAA
1 TCAA
60261558 ACTCTCAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
21 20 0.33
22 41 0.67
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:60261521 original size:43 final size:44
Alignment explanation
Indices: 60261467--60261557 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 44
60261457 AAATTCAATA
* *
60261467 TCAATTTCCTTCAAAAATTCTCTCAA-TTCCTTTCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTCTCAATTTCCTTCCAAAATTCTC
*
60261510 TCAATTCCCTTCAAAATTTCTCTCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTCTCAATTTCCTTCCAAAATTCTC
60261554 TCAA
1 TCAA
60261558 ACTCTCAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 24 0.55
44 20 0.45
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTCTCTCAATTTCCTTCCAAAATTCTC
Found at i:60261563 original size:30 final size:30
Alignment explanation
Indices: 60261529--60261587 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
60261519 TTCAAAATTT
* *
60261529 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
60261559 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
60261588 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:60261573 original size:52 final size:51
Alignment explanation
Indices: 60261507--60261609 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
60261497 TTTCAAAATT
* * *
60261507 CTCTCAATTCCCTT-CAAAATTTCTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
60261559 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
60261610 TCCATATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:60261598 original size:21 final size:22
Alignment explanation
Indices: 60261559--60261600 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
60261549 TTCTCTCAAA
60261559 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
60261581 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
60261601 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:60261688 original size:29 final size:30
Alignment explanation
Indices: 60261642--60261699 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
60261632 ATTAAATTTC
60261642 ATTTTTTTAAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAAGAAAATTTTAAAATTTTTT
* *
60261672 ATTTTTTTAAA-ATAATTTTAACATTTTT
1 ATTTTTTTAAAGAAAATTTTAAAATTTTT
60261700 AATATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
ATTTTTTTAAAGAAAATTTTAAAATTTTTT
Found at i:60261707 original size:29 final size:30
Alignment explanation
Indices: 60261645--60261707 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
60261635 AAATTTCATT
* *
60261645 TTTTTAAAGAAAATTTTAAAATTTTTTATT
1 TTTTTAAAGAAAATTTTAAAATTTTTAATA
* *
60261675 TTTTTAAA-ATAATTTTAACATTTTTAATA
1 TTTTTAAAGAAAATTTTAAAATTTTTAATA
60261704 TTTT
1 TTTT
60261708 CAACAATGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTTTAAAGAAAATTTTAAAATTTTTAATA
Found at i:60261825 original size:22 final size:25
Alignment explanation
Indices: 60261803--60261848 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
60261793 TTAAATTTTA
60261803 TTTAAGATATTT-TT-ATTTATTAT
1 TTTAAGATATTTATTAATTTATTAT
*
60261826 TTTTAGATATTTATTAATTTATT
1 TTTAAGATATTTATTAATTTATT
60261849 TTTGTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 2 0.10
25 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTAAGATATTTATTAATTTATTAT
Found at i:60263996 original size:29 final size:28
Alignment explanation
Indices: 60263954--60264644 Score: 524
Period size: 23 Copynumber: 26.2 Consensus size: 28
60263944 TTTTGACATT
*
60263954 ATTTGATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
60263983 ATTTAATTAAAAACCCTAA-C---CCT-
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
60264006 ACTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
60264035 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* * *
60264058 ACTTAATTAAAAAACCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* * **
60264086 ATTAAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* ** ****
60264114 A-TAAAAAAAAATTAAAAAAACCCTAACCTA
1 ATTTAATTAAAA--ACCCTAA-CCTAACCTA
60264144 ATTTAATTAAAAA--C---CCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
60264167 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* * *
60264190 ACTTAATTAAAAAACCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
60264218 ATTAAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
60264247 ATTTAATTAAAAACCCTAA-C---CCT-
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
60264270 ACTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
60264299 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
60264322 ACTTAATTAAAAAACCTAACCTAA-C--
1 ATTTAATTAAAAACCCTAACCTAACCTA
60264347 --TTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
60264374 ATTTAATTAAAAA-CCT----TAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
60264397 ATTTAATTAAAAA-CC----CTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
60264420 ATTTAATTGAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
60264443 ACTTAATTAAAAACCATAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* * **
60264466 ACTTAATTAAAAACCCTAAGCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
60264494 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
* * *
60264523 ATTTAATTGAAATCCTTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
60264551 ATTTAATTAAAAACCCCAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
* *
60264580 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAA-CCTAACCTA
* *
60264609 TTTTAATTAAAATCCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
60264638 ATTTAAT
1 ATTTAAT
60264645 CGCAAGTGTA
Statistics
Matches: 549, Mismatches: 57, Indels: 112
0.76 0.08 0.16
Matches are distributed among these distances:
23 212 0.39
24 17 0.03
25 8 0.01
26 4 0.01
27 14 0.03
28 98 0.18
29 181 0.33
30 8 0.01
31 7 0.01
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACCTA
Found at i:60264021 original size:52 final size:53
Alignment explanation
Indices: 60263959--60264640 Score: 613
Period size: 52 Copynumber: 13.1 Consensus size: 53
60263949 ACATTATTTG
60263959 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT-ACTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
*
60264011 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CATAACTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
* * * * *
60264063 ATTAAAAAACCTAA-CCTAACTTAATTAAATTAAAAACCCTAA-CATAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
* *** *
60264114 ATAAAAAAAAATTAAAAAAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTA
1 AT-TAAAAACCCT-----AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
* *
60264172 ATTAAAAACCCTAA--C--A--TAACTTAATTAAAAAACCTAA-CCTAACTTAATTAA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAAC----TT-A
60264223 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT-ACTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
*
60264275 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CATAACTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
* *
60264327 ATT-AAAA----AA-CCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
* *
60264374 ATTTAATTAAA----AACCTTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTA
1 A-TTAA--AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
* * * *
60264425 ATTGAAAACCCTAA--C--A--TAACTTAATTAAAAACCATAA-CATAACTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
* ** *
60264471 ATTAAAAACCCTAA-GCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
* * *
60264523 ATTTAATTGAAATCCTTAA-CCTAACCTAATTTAATTAAAAACCCCAACCCTAACCTA
1 A-TTAA---AAA-CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
* * * *
60264580 TTTTACATGAAAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTA
1 -ATT--A--AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
60264638 ATT
1 ATT
60264641 TAATCGCAAG
Statistics
Matches: 532, Mismatches: 50, Indels: 91
0.79 0.07 0.14
Matches are distributed among these distances:
46 90 0.17
47 11 0.02
48 7 0.01
49 2 0.00
50 6 0.01
51 91 0.17
52 158 0.30
53 7 0.01
55 1 0.00
56 3 0.01
57 77 0.14
58 77 0.14
59 1 0.00
61 1 0.00
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (53 bp):
ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTA
Found at i:60264162 original size:109 final size:106
Alignment explanation
Indices: 60264023--60264513 Score: 419
Period size: 98 Copynumber: 4.8 Consensus size: 106
60264013 TAAAAACCCT
* *
60264023 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAACTTAAT
*
60264088 TAAATTAAAAACCCTAACATAATTTAATAAAAAAAAATTAAAAA
66 T-AATTAAAAACCCTAACATAACTTAATAAAAAAAAA--AAAAA
* *
60264132 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAACTTAAT
* ** ****
60264197 T-A--AAAAA-CCTAACCTAACTTAATTAAATTAAAAACCCT
66 TAATTAAAAACCCTAACATAACTTAA-TAAAAAAAAAAAAAA
*
60264235 AACCCTAACCTAATTTAATTAAAAACCCTAACCCT-ACTTAATTAAAAACCCTAACCCTAACCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAACTTAATTAAAAACCCTAA-CCTAACTTA
*
60264299 ATTTAATTAAAAACCCTAACATAACTTAAT---------TAAAA
64 A-TTAATTAAAAACCCTAACATAACTTAATAAAAAAAAAAAAAA
* *
60264334 AA-CCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCTTAACCTAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAA-C----TTAATTAAAAACCCTAACCTAA
* ***
60264398 --T--TTAATTAAAAACCCTAACCTAA-TT--T-------AATTGAA
60 CTTAATTAATTAAAAACCCTAACATAACTTAATAAAAAAAAAAAAAA
* * * * * *
60264431 AACCCTAACATAACTTAATTAAAAACCATAACATAACTTAATTAAAAACCCTAAGCTAATTTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAACTTAA-
60264496 TTAATTAAAAACCCTAAC
65 TTAATTAAAAACCCTAAC
60264514 CCTAACCTAA
Statistics
Matches: 329, Mismatches: 31, Indels: 56
0.79 0.07 0.13
Matches are distributed among these distances:
92 20 0.06
94 1 0.00
95 1 0.00
96 1 0.00
97 29 0.09
98 78 0.24
99 3 0.01
100 1 0.00
101 1 0.00
103 55 0.17
104 40 0.12
105 15 0.05
106 1 0.00
107 1 0.00
108 6 0.02
109 76 0.23
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (106 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAACTTAAT
TAATTAAAAACCCTAACATAACTTAATAAAAAAAAAAAAAA
Found at i:60264191 original size:132 final size:126
Alignment explanation
Indices: 60263959--60264644 Score: 702
Period size: 132 Copynumber: 5.2 Consensus size: 126
60263949 ACATTATTTG
*
60263959 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT-ACTTAATTAAAAACCCT
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTAATT--AAA----
60264023 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
59 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
60264088 TAA
124 TAA
* ** **
60264091 ATTAAAAACCCTAA-CATAATTTAATAAAAAAAAATTAAAAAAACCCTAACCTAATTTAATTAAA
1 ATTAAAAACCCTAACCCTAACCTAAT-----TTAATT--AAAAACCCTAACCTAATTTAATTAAA
60264155 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
59 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
60264220 TAA
124 TAA
*
60264223 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT-ACTTAATTAAAAACCCT
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTAATT--AAA----
60264287 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAAC----T
59 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAAT
60264348 T-A
124 TAA
*
60264350 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCTTAACCTAATTTAATTAAAAACCCTA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
* *
60264415 ACCTAATTTAATTGAAAACCCTAACATAACTTAATT-AAAAACC--A--TAACATAACTT-A
66 ACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAA-TTAA
* **
60264471 ATTAAAAACCCTAA-GCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTGAAA
1 ATTAAAAACCCTAACCCTAACCTAATTTAATT--AAA----AACCCTAACCTAATTTAATT-AAA
* * * *
60264535 TCCTTAA-CCTAACCTAATTTAATTAAAAACCCCAACCCTAACCTATTTTACATGAAAACCCTAA
59 -----AACCCTAACCTAATTTAATTAAAAACCCTAA-CATAACTTA-ATTA-A--AAAA-CCTAA
* * *
60264599 CCCTAACCTATTTTA
113 -CCTAACTTAATTAA
*
60264614 ATTAAAATCCCTAACCCTAACCTAATTTAAT
1 ATTAAAAACCCTAACCCTAACCTAATTTAAT
60264645 CGCAAGTGTA
Statistics
Matches: 476, Mismatches: 30, Indels: 84
0.81 0.05 0.14
Matches are distributed among these distances:
116 4 0.01
118 1 0.00
120 21 0.04
121 59 0.12
122 3 0.01
125 3 0.01
126 40 0.08
127 56 0.12
128 9 0.02
131 34 0.07
132 165 0.35
133 10 0.02
135 1 0.00
136 7 0.01
137 7 0.01
138 20 0.04
140 1 0.00
142 2 0.00
143 20 0.04
144 13 0.03
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (126 bp):
ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
ACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAATTAA
Found at i:60267497 original size:124 final size:124
Alignment explanation
Indices: 60267277--60267541 Score: 397
Period size: 124 Copynumber: 2.1 Consensus size: 124
60267267 CCACGAGGGC
60267277 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * **
60267342 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATTA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* * * *
60267401 GCGATTTTATACTATTTGCTCAGGAAACGTCAAAAAAATTTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTGCTCA-GAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* *
60267465 GAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTGGTAGAA
65 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
**
60267525 GCGATTTCCCACTATTT
1 GCGATTTGACACTATTT
60267542 AACCAGATAC
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
124 95 0.75
125 31 0.25
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:60268646 original size:29 final size:31
Alignment explanation
Indices: 60268575--60268647 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 31
60268565 AAATTTTAAA
* *
60268575 TTAATAATAAT-AAAATTATATTTTAATCTC
1 TTAAAAATAATAAAAATTATAATTTAATCTC
60268605 TTAAAAATAATAAAAATT-TAATTTAAT-TC
1 TTAAAAATAATAAAAATTATAATTTAATCTC
*
60268634 TTAAAAATTATAAA
1 TTAAAAATAATAAA
60268648 GATCTAGTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.38
30 18 0.46
31 6 0.15
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (31 bp):
TTAAAAATAATAAAAATTATAATTTAATCTC
Found at i:60269344 original size:25 final size:25
Alignment explanation
Indices: 60269316--60269366 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
60269306 GTTTAATTTA
60269316 GGACATCGTTAGAGTCAATTGAATG
1 GGACATCGTTAGAGTCAATTGAATG
60269341 GGACATCGTTAGAGTCAATTGAATG
1 GGACATCGTTAGAGTCAATTGAATG
60269366 G
1 G
60269367 ACTAAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.27
Consensus pattern (25 bp):
GGACATCGTTAGAGTCAATTGAATG
Found at i:60271214 original size:3 final size:3
Alignment explanation
Indices: 60271206--60271236 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
60271196 ATCAATTTCT
60271206 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
60271237 TATTGACTTT
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:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:60271446 original size:26 final size:25
Alignment explanation
Indices: 60271417--60271471 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
60271407 AGATTTATTC
60271417 TAGAGTTTAAAT-TTTTAAGTGTTAAA
1 TAGAGTTTAAATCTTTTAA--GTTAAA
* *
60271443 TAGATTTTAGATCTTTTAAGTTAAA
1 TAGAGTTTAAATCTTTTAAGTTAAA
60271468 TAGA
1 TAGA
60271472 TTGTGGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 10 0.38
26 10 0.38
27 6 0.23
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (25 bp):
TAGAGTTTAAATCTTTTAAGTTAAA
Found at i:60289625 original size:19 final size:20
Alignment explanation
Indices: 60289587--60289629 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
60289577 TTTAAAGCTA
* *
60289587 GTTTTTTTTTCTCTTCTTTT
1 GTTTATTTTTCTCTTATTTT
60289607 GTTTATTTTTC-CTTATTTT
1 GTTTATTTTTCTCTTATTTT
60289626 GTTT
1 GTTT
60289630 CCTTCCTACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.77
Consensus pattern (20 bp):
GTTTATTTTTCTCTTATTTT
Found at i:60290402 original size:29 final size:29
Alignment explanation
Indices: 60290358--60290414 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 29
60290348 GAATATAAAC
60290358 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
60290387 TATATTTTTTTATTTTTAAAATACACTA
1 TATA-TTTTTTATTTTTAAAATACACTA
60290415 ATAGTAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:60294815 original size:88 final size:88
Alignment explanation
Indices: 60294633--60294836 Score: 255
Period size: 88 Copynumber: 2.3 Consensus size: 88
60294623 TTTGTCTTAC
* * * *
60294633 TCGCTGTCGGTGCAGGAATGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGC
1 TCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAAGC
* * *
60294698 AAGGCTAGTGTCTTTGATTTGCT
66 AAGGCTAGTGTCTTCGATCTACT
** * * *
60294721 TCGCTGTTTGTGCAAGAAGGTAAGATCTGCTATTTTTAACCTGCTCTGCTATAACCCAGGGAAGC
1 TCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAAGC
* * *
60294786 AAGGTTGGTGTCTTCGATCTATT
66 AAGGCTAGTGTCTTCGATCTACT
* *
60294809 TTGCTGTCGGTGCAGGAAGGCAAGATCT
1 TCGCTGTCGGTGCAAGAAGGCAAGATCT
60294837 ATTATCTTCA
Statistics
Matches: 96, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
88 96 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (88 bp):
TCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAAGC
AAGGCTAGTGTCTTCGATCTACT
Found at i:60296179 original size:14 final size:15
Alignment explanation
Indices: 60296156--60296188 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
60296146 ATCGATGCTT
60296156 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
60296170 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
60296185 TTCC
1 TTCC
60296189 TAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:60297068 original size:25 final size:26
Alignment explanation
Indices: 60297017--60297077 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
60297007 AAGAAAATCC
* **
60297017 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
60297043 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
60297068 AAAATGAATG
1 AAAA-GAATG
60297078 CAAAGATGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:60299792 original size:43 final size:44
Alignment explanation
Indices: 60299689--60299801 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
60299679 TGTGTTGTAG
* * * *
60299689 TGTAAGACCACGTCTGGGACGTTGACATCAACTTGTGATTTACG
1 TGTAAGACCACGTCTAGGACGATGGCATCAACTTGTGATTTACA
* * *
60299733 TGTAAGACC-CTTTCTAGGACAATGGCATCGA-TATGTGA-TTACA
1 TGTAAGACCAC-GTCTAGGACGATGGCATCAACT-TGTGATTTACA
60299776 TGTAAGACCACGTCTAGGACGATGGC
1 TGTAAGACCACGTCTAGGACGATGGC
60299802 GTTGTACGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
43 28 0.49
44 29 0.51
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
TGTAAGACCACGTCTAGGACGATGGCATCAACTTGTGATTTACA
Found at i:60300677 original size:70 final size:70
Alignment explanation
Indices: 60300603--60301414 Score: 1035
Period size: 70 Copynumber: 11.6 Consensus size: 70
60300593 GTCCAATTCA
* *
60300603 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTTATATGTATATGCTGCCCA
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGATATATATATGCTGCCCA
*
60300668 ATTTA
66 ATTTG
* * * * ** * * *
60300673 GTGTCTATATGCTGTCAAAATTTGGTGTGAAAATGCAGTCAAATTTGGTATATATATGCTGCCTA
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGATATATATATGCTGCCCA
60300738 ATTTG
66 ATTTG
* * *
60300743 GTGTCTATATGCTGTTCAATTTTGGTGTAAAAAATGTTGTCCAATTTGGTATATATATGCTGCCC
1 GTGTCTATATGCTATCCAATTTTGGTGT-AAAAATGTTGTCCAATTTGATATATATATGCTGCCC
*
60300808 AATTCG
65 AATTTG
* * *
60300814 GTGTCTATA---TATCCAATTTTGGTGTAAAAATGTGGTCCAATTTGGTATATATATGCTACCCA
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGATATATATATGCTGCCCA
60300876 ATTTG
66 ATTTG
* * * *
60300881 GTGTCTATATGTTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGCTATATATATGCTGCCCA
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGATATATATATGCTGCCCA
60300946 ATTTG
66 ATTTG
* * * * *
60300951 GTGTATATATGCTGTCAAATTTTGGTGTAAGAATGTTGTCCAATTT-AGTATATATATGCTGTCC
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGA-TATATATATGCTGCCC
*
60301015 AATTCG
65 AATTTG
* * *
60301021 GTGTCTATATGCAATCCAATTTTGGTGT-AAAATGCTGTCCAATTTGCTATATATATGCTGCCCA
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGATATATATATGCTGCCCA
60301085 ATTTG
66 ATTTG
* * * *
60301090 GTGTATATATGCTGTCAAATTTTGGTGTAAGAATGTTGTCCAATTT-AGTATATATATGCTGCCC
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGA-TATATATATGCTGCCC
60301154 AATTTG
65 AATTTG
* * * * *
60301160 GTGTATATATGCTGTCAAATTTTGGTGTAAGAATGTTGTCCAATTT-AGTATATATATGCTGTCC
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGA-TATATATATGCTGCCC
*
60301224 AATTCG
65 AATTTG
* **
60301230 GTGTCTATATGCAATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGATATATATATATTGCCCA
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGATATATATATGCTGCCCA
60301295 ATTTG
66 ATTTG
* * * **
60301300 GTGTATAAATGCTATCCAATTTTTGTGTAAAAATGTTGTCCAATTTGATATATATATATATTGCC
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTG--ATATATATATGCTGCC
60301365 CAATTTG
64 CAATTTG
* * * *
60301372 GTGTATAAATGCTATCCAATTTTGGTGTATAAATGCTGTCCAA
1 GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAA
60301415 ACAGGGTAAT
Statistics
Matches: 658, Mismatches: 73, Indels: 20
0.88 0.10 0.03
Matches are distributed among these distances:
67 48 0.07
68 14 0.02
69 59 0.09
70 428 0.65
71 46 0.07
72 63 0.10
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (70 bp):
GTGTCTATATGCTATCCAATTTTGGTGTAAAAATGTTGTCCAATTTGATATATATATGCTGCCCA
ATTTG
Found at i:60300681 original size:23 final size:23
Alignment explanation
Indices: 60300593--60301414 Score: 566
Period size: 23 Copynumber: 35.3 Consensus size: 23
60300583 TTCGGTTCAA
** *
60300593 GTCCAATTCAGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * * *
60300616 ATCCAATTTTGGTGTAAAAATGTT
1 GTCCAA-TTTGGTGTATATATGCT
** * *
60300640 GTCCAATTTTATATGTATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * *
60300663 GCCCAATTTAGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * *
60300686 GTCAAAATTTGGTGTGA-AAATGCA
1 GTC-CAATTTGGTGT-ATATATGCT
* *
60300710 GTCAAATTTGGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
*
60300733 G-CCTAATTTGGTGTCTATATGCT
1 GTCC-AATTTGGTGTATATATGCT
* * * *
60300756 GTTCAATTTTGGTGTAAAAAATGTT
1 GTCCAA-TTTGGTGT-ATATATGCT
*
60300781 GTCCAATTTGGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * *
60300804 GCCCAATTCGGTGTCTATA---T
1 GTCCAATTTGGTGTATATATGCT
* * *
60300824 ATCCAATTTTGGTGTAAAAATG-T
1 GTCCAA-TTTGGTGTATATATGCT
*
60300847 GGTCCAATTTGGTATATATATGCT
1 -GTCCAATTTGGTGTATATATGCT
** * *
60300871 ACCCAATTTGGTGTCTATATGTT
1 GTCCAATTTGGTGTATATATGCT
* *
60300894 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
* *
60300918 GTCCAATTTGCTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
*
60300941 GCCCAATTTGGTGTATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * *
60300964 GTCAAATTTTGGTGTA-AGAATGTT
1 GTCCAA-TTTGGTGTATA-TATGCT
* *
60300988 GTCCAATTTAGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * *
60301011 GTCCAATTCGGTGTCTATATGCA
1 GTCCAATTTGGTGTATATATGCT
* *
60301034 ATCCAATTTTGGTGTA-AAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
* *
60301057 GTCCAATTTGCTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
*
60301080 GCCCAATTTGGTGTATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * *
60301103 GTCAAATTTTGGTGTA-AGAATGTT
1 GTCCAA-TTTGGTGTATA-TATGCT
* *
60301127 GTCCAATTTAGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
*
60301150 GCCCAATTTGGTGTATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * *
60301173 GTCAAATTTTGGTGTA-AGAATGTT
1 GTCCAA-TTTGGTGTATA-TATGCT
* *
60301197 GTCCAATTTAGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * *
60301220 GTCCAATTCGGTGTCTATATGCA
1 GTCCAATTTGGTGTATATATGCT
* * * *
60301243 ATCCAATTTTGGTGTAAAAATGTT
1 GTCCAA-TTTGGTGTATATATGCT
* * **
60301267 GTCCAATTTGATATATATATATT
1 GTCCAATTTGGTGTATATATGCT
* *
60301290 GCCCAATTTGGTGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCT
* * * * *
60301313 ATCCAATTTTTGTGTAAAAATGTT
1 GTCCAA-TTTGGTGTATATATGCT
* * **
60301337 GTCCAATTTGATATATATATATATT
1 GTCCAATTTG--GTGTATATATGCT
* *
60301362 GCCCAATTTGGTGTATAAATGCT
1 GTCCAATTTGGTGTATATATGCT
* *
60301385 ATCCAATTTTGGTGTATAAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
60301409 GTCCAA
1 GTCCAA
60301415 ACAGGGTAAT
Statistics
Matches: 603, Mismatches: 166, Indels: 59
0.73 0.20 0.07
Matches are distributed among these distances:
20 5 0.01
21 9 0.01
22 9 0.01
23 358 0.59
24 195 0.32
25 27 0.04
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (23 bp):
GTCCAATTTGGTGTATATATGCT
Found at i:60301750 original size:4 final size:4
Alignment explanation
Indices: 60301741--60301767 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
60301731 TTTGATCGAA
60301741 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
60301768 ATTTTGTGAT
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:60307931 original size:44 final size:43
Alignment explanation
Indices: 60307881--60307989 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 43
60307871 TATGTATTGT
* *
60307881 CGTGTAAGACCACGTCTGGGACATTGGCATCGACT-TGTGATTTA
1 CGTGTAAGACCACGTCTGGGACAGTGGCATCGA-TATGTG-CTTA
*
60307925 CGTGTAAGACC-CTGTTTGGGACAGTGGCATCGATATGTGCTTA
1 CGTGTAAGACCAC-GTCTGGGACAGTGGCATCGATATGTGCTTA
* *
60307968 CATGTAAGACCACATCTGGGAC
1 CGTGTAAGACCACGTCTGGGAC
60307990 GATAGCGTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
43 22 0.39
44 34 0.61
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACAGTGGCATCGATATGTGCTTA
Found at i:60308309 original size:104 final size:104
Alignment explanation
Indices: 60308129--60308337 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
60308119 GTTATAAAAA
60308129 TATGGTGAGTTGAATGTATGACTTGATGATTTCGTATCATATATTAATGTGAATTATGTGTATGT
1 TATGGTGAGTTGAATGTATGACTTGATGATTTCGTATCATATATTAATGTGAATTATGTGTATGT
60308194 ATATGTGAACATATATATTCAGCCAAATGATGTTTATTT
66 ATATGTGAACATATATATTCAGCCAAATGATGTTTATTT
60308233 TATGGTGAGTTGAATGTATGACTTGATGATTTCGTATCATATATTAATGTGAATTATGTGTATGT
1 TATGGTGAGTTGAATGTATGACTTGATGATTTCGTATCATATATTAATGTGAATTATGTGTATGT
60308298 ATATGTGAACATATATATTCAGCCAAATGATGTTTATTT
66 ATATGTGAACATATATATTCAGCCAAATGATGTTTATTT
60308337 T
1 T
60308338 TATTATTGTA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.44
Consensus pattern (104 bp):
TATGGTGAGTTGAATGTATGACTTGATGATTTCGTATCATATATTAATGTGAATTATGTGTATGT
ATATGTGAACATATATATTCAGCCAAATGATGTTTATTT
Found at i:60308988 original size:70 final size:74
Alignment explanation
Indices: 60308895--60309061 Score: 211
Period size: 74 Copynumber: 2.3 Consensus size: 74
60308885 AGTCCTATTC
* *
60308895 GGTGTCTATATG-TGTCCAATTTTGGTAAAAAAATT-CTATCCAA-TTT-GGTAT-T-TATATGC
1 GGTGTCTATATGCTGTCCAATTTTGAT-AAAAAATTGCTATCCAATTTTAGATATATATATATGC
60308954 TGCCCAATTT
65 TGCCCAATTT
** * *
60308964 GGTGTCTATATGCTGTCCAATTTTGATGTAAAATTGCTGTCCAATTTTATATATATATATATGCT
1 GGTGTCTATATGCTGTCCAATTTTGATAAAAAATTGCTATCCAATTTTAGATATATATATATGCT
60309029 GCCCAATTT
66 GCCCAATTT
* *
60309038 GGTGTATAAATGCTGTCCAATTTT
1 GGTGTCTATATGCTGTCCAATTTT
60309062 TGTGTATAAG
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
69 18 0.21
70 20 0.24
71 3 0.04
72 3 0.04
73 1 0.01
74 39 0.46
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (74 bp):
GGTGTCTATATGCTGTCCAATTTTGATAAAAAATTGCTATCCAATTTTAGATATATATATATGCT
GCCCAATTT
Found at i:60309001 original size:24 final size:25
Alignment explanation
Indices: 60308974--60309070 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 25
60308964 GGTGTCTATA
60308974 TGCTGTCCAATTTTGATGTA-AAAT
1 TGCTGTCCAATTTTGATGTATAAAT
*
60308998 TGCTGTCCAATTTT-ATATATATATAT
1 TGCTGTCCAATTTTGATGTATA-A-AT
* *
60309024 ATGCTGCCCAA-TTTGGTGTATAAA-
1 -TGCTGTCCAATTTTGATGTATAAAT
60309048 TGCTGTCCAATTTTTG-TGTATAA
1 TGCTGTCCAA-TTTTGATGTATAA
60309071 GAGTTGTCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
23 13 0.21
24 22 0.36
25 6 0.10
26 6 0.10
27 14 0.23
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (25 bp):
TGCTGTCCAATTTTGATGTATAAAT
Found at i:60309050 original size:23 final size:24
Alignment explanation
Indices: 60308907--60309070 Score: 111
Period size: 23 Copynumber: 6.8 Consensus size: 24
60308897 TGTCTATATG
** * *
60308907 TGTCCAATTTTGGTAAAAAAATTC
1 TGTCCAATTTTGGTGTATAAATGC
* * * *
60308931 TATCCAA-TTTGGTATTTATATGC
1 TGTCCAATTTTGGTGTATAAATGC
* * *
60308954 TGCCCAA-TTTGGTGTCTATATGC
1 TGTCCAATTTTGGTGTATAAATGC
*
60308977 TGTCCAATTTTGATGTA-AAATTGC
1 TGTCCAATTTTGGTGTATAAA-TGC
** *
60309001 TGTCCAATTTTATATATATATATATGC
1 TGTCCAATTTT-GGTGTATA-A-ATGC
*
60309028 TGCCCAA-TTTGGTGTATAAATGC
1 TGTCCAATTTTGGTGTATAAATGC
*
60309051 TGTCCAATTTTTGTGTATAA
1 TGTCCAATTTTGGTGTATAA
60309071 GAGTTGTCCA
Statistics
Matches: 111, Mismatches: 22, Indels: 14
0.76 0.15 0.10
Matches are distributed among these distances:
23 48 0.43
24 39 0.35
25 9 0.08
26 4 0.04
27 10 0.09
28 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (24 bp):
TGTCCAATTTTGGTGTATAAATGC
Found at i:60310044 original size:77 final size:81
Alignment explanation
Indices: 60309963--60310142 Score: 208
Period size: 83 Copynumber: 2.3 Consensus size: 81
60309953 ATGACAATAT
*
60309963 TAAATCCTGAAACAGAATTATTTAATTAAATATT-GTCTGGAAACAAAATC-A-A-AATAAAACC
1 TAAATCCTGAAACAGAATTATTTAATTAAATATTCGTCTAGAAACAAAATCAATAGAATAAAACC
* *
60310024 TGTTAAGCGGCGGGAA
66 TATTAAACGGCGGGAA
* * * * *
60310040 TAAATCCCGAAACAGAATTATTTGATTAAGTATTCTTTTAGAAACAAAATCAAGATAGAATAAAA
1 TAAATCCTGAAACAGAATTATTTAATTAAATATTCGTCTAGAAACAAAATC-A-ATAGAATAAAA
*
60310105 TCTATTAAACGGCGGGAA
64 CCTATTAAACGGCGGGAA
* *
60310123 TAAATCTTAAAACA-AATTAT
1 TAAATCCTGAAACAGAATTAT
60310143 ACAATTTAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
77 31 0.36
78 13 0.15
81 1 0.01
82 7 0.08
83 33 0.39
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (81 bp):
TAAATCCTGAAACAGAATTATTTAATTAAATATTCGTCTAGAAACAAAATCAATAGAATAAAACC
TATTAAACGGCGGGAA
Found at i:60310126 original size:83 final size:82
Alignment explanation
Indices: 60309963--60310320 Score: 268
Period size: 82 Copynumber: 4.3 Consensus size: 82
60309953 ATGACAATAT
* *
60309963 TAAATCCTGAAACAGAATTATTTAATTAA-ATATTGTCTGGAAACAAAATC---A-A-AATAAAA
1 TAAATCCTGAAACAGAATTATTTAATTAATAT-TTATTTGGAAACAAAATCAAAATAGAATAAAA
* * *
60310022 CCTGTTAAGCGGCGGGAA
65 TCTATTAAACGGCGGGAA
* * * *
60310040 TAAATCCCGAAACAGAATTATTTGATTAAGTATTCT-TTTAGAAACAAAATCAAGATAGAATAAA
1 TAAATCCTGAAACAGAATTATTTAATTAA-TATT-TATTTGGAAACAAAATCAAAATAGAATAAA
60310104 ATCTATTAAACGGCGGGAA
64 ATCTATTAAACGGCGGGAA
* * ** * * * *
60310123 TAAATCTTAAAACA-AATTATACAATTTAAT-TCTAATTTGGAAACCAAATTAAAATCGAATAAA
1 TAAATCCTGAAACAGAATTATTTAA-TTAATAT-TTATTTGGAAACAAAATCAAAATAGAATAAA
* * **
60310186 ATCTTTTAAACTGCAAGAA
64 ATCTATTAAACGGCGGGAA
* * *
60310205 TAAATCCTGAAACA-AATTCTATTTAATTTTAATATTTGTTTGGAAATAAAAACAAAATAGAGAA
1 TAAATCCTGAAACAGAA-T-TATTTAA--TTAATATTTATTTGGAAACAAAATCAAAAT--AGAA
*
60310269 TAAAATCTATTGAACGGCGGGGAA
60 TAAAATCTATTAAACGGC-GGGAA
* ** *
60310293 AAAATCCCAAAACAGATTTTATTTAATT
1 TAAATCCTGAAACAGA-ATTATTTAATT
60310321 TAAAATTTTA
Statistics
Matches: 218, Mismatches: 43, Indels: 31
0.75 0.15 0.11
Matches are distributed among these distances:
77 27 0.12
78 14 0.06
79 3 0.01
81 2 0.01
82 62 0.28
83 38 0.17
84 5 0.02
85 23 0.11
86 3 0.01
87 18 0.08
88 21 0.10
89 2 0.01
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (82 bp):
TAAATCCTGAAACAGAATTATTTAATTAATATTTATTTGGAAACAAAATCAAAATAGAATAAAAT
CTATTAAACGGCGGGAA
Found at i:60310483 original size:22 final size:21
Alignment explanation
Indices: 60310458--60310499 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
60310448 AGCGAACAAA
60310458 AATATATAAATATAAATAAAAG
1 AATATATAAATAT-AATAAAAG
* *
60310480 AATATTTATATATAATAAAA
1 AATATATAAATATAATAAAA
60310500 TAAATTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AATATATAAATATAATAAAAG
Found at i:60310514 original size:28 final size:28
Alignment explanation
Indices: 60310459--60310524 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
60310449 GCGAACAAAA
60310459 ATATATAAATATAAATAAAAGAATATTT
1 ATATATAAATATAAATAAAAGAATATTT
*
60310487 ATATAT-AATA-AAATAAATTGAATAATTT
1 ATATATAAATATAAATAAA-AGAAT-ATTT
*
60310515 ATATTTAAAT
1 ATATATAAAT
60310525 TATCGGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 7 0.21
27 8 0.24
28 15 0.45
29 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (28 bp):
ATATATAAATATAAATAAAAGAATATTT
Found at i:60315709 original size:16 final size:16
Alignment explanation
Indices: 60315685--60315732 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
60315675 TTTGGTTCGC
*
60315685 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
60315701 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
*
60315717 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
60315733 CATAATAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.27
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:60315738 original size:16 final size:16
Alignment explanation
Indices: 60315690--60315738 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
60315680 TTCGCTGTAT
*
60315690 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
*
60315706 TGGAATAGATGCGTAA
1 TGGAATAGAGGCGTAA
*
60315722 TGGAATAGAGGCATAA
1 TGGAATAGAGGCGTAA
60315738 T
1 T
60315739 AGGTAATTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:60315773 original size:46 final size:44
Alignment explanation
Indices: 60315720--60315808 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
60315710 ATAGATGCGT
* *
60315720 AATGGAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTAAATGG
1 AATGGAATAGAGGCATAAT-GGT-ATTATTGTGTTTGGTTAAATGG
* *
60315766 AATGGAATAGAGGCGTAATGGTATTATTGTGTTTGGTTGAATG
1 AATGGAATAGAGGCATAATGGTATTATTGTGTTTGGTTAAATG
60315809 TAATAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.46
45 3 0.08
46 18 0.46
ACGTcount: A:0.30, C:0.03, G:0.29, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAGGCATAATGGTATTATTGTGTTTGGTTAAATGG
Found at i:60315808 original size:39 final size:44
Alignment explanation
Indices: 60315720--60315825 Score: 114
Period size: 39 Copynumber: 2.5 Consensus size: 44
60315710 ATAGATGCGT
* * *
60315720 AATGGAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTAAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTATTGTGTTTGGTT--ATGG
60315766 AATGGAATAGAGGCGTAAT-GGT-ATTATTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTATTGTGTTTGGTTATGG
* *
60315805 AATGTAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
60315826 CATAAGGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
39 18 0.33
40 2 0.04
43 1 0.02
44 12 0.22
45 3 0.06
46 18 0.33
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTATTGTGTTTGGTTATGG
Found at i:60316024 original size:18 final size:17
Alignment explanation
Indices: 60315972--60316106 Score: 86
Period size: 18 Copynumber: 8.0 Consensus size: 17
60315962 TTATTATTAA
60315972 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
60315990 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
60316007 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
* * * *
60316025 -CATAATAT-ATGATACT
1 ATATAATTTAAT-AAAAT
* *
60316041 ATATAATATAATTTGAAAT
1 ATATAATTTAA--TAAAAT
* *
60316060 A-ATTA-TT-ATTAAAT
1 ATATAATTTAATAAAAT
60316074 ATAT--TTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60316090 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60316107 TCTTAATAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
14 8 0.09
15 4 0.04
16 17 0.19
17 25 0.27
18 33 0.36
19 3 0.03
20 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60320041 original size:82 final size:83
Alignment explanation
Indices: 60319821--60320043 Score: 288
Period size: 84 Copynumber: 2.7 Consensus size: 83
60319811 TCTTCGTTTA
* * * * *
60319821 GAAACAAAATCAAGATCGAATAAAATATGTTAATCGACGGGAATAAATCTCGAAACAGATTATTC
1 GAAACAAAATCAAAATCGAATAAAATATGTTAAACGGCGGGAATAAATCTCGAAACAAATTATAC
60319886 AATTTAATTCTAATTTGG
66 AATTTAATTCTAATTTGG
* * * * * *
60319904 G-AACAATAAAACAAAATTGAATAGAATCTGTTAAATGGCGGGAATAAATCCCGAAACAAATTAT
1 GAAAC-A-AAATCAAAATCGAATAAAATATGTTAAACGGCGGGAATAAATCTCGAAACAAATTAT
60319968 ACAATTTAATTCTAATTT-G
64 ACAATTTAATTCTAATTTGG
* * *
60319987 GAAACCAAATTAAAATCGAATAAAATTTGTTAAACGGCGGGAATAAATCTCGAAACA
1 GAAACAAAATCAAAATCGAATAAAATATGTTAAACGGCGGGAATAAATCTCGAAACA
60320044 TATATTAGTT
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
82 47 0.40
83 4 0.03
84 67 0.57
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (83 bp):
GAAACAAAATCAAAATCGAATAAAATATGTTAAACGGCGGGAATAAATCTCGAAACAAATTATAC
AATTTAATTCTAATTTGG
Found at i:60325666 original size:25 final size:25
Alignment explanation
Indices: 60325638--60325685 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
60325628 AAAATTACAT
*
60325638 TAAAAATATTTTTTAAAAGAAAAGG
1 TAAAAATAATTTTTAAAAGAAAAGG
*
60325663 TAAAAATAATTTTTAACAGAAAA
1 TAAAAATAATTTTTAAAAGAAAA
60325686 TACGAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (25 bp):
TAAAAATAATTTTTAAAAGAAAAGG
Found at i:60332640 original size:110 final size:110
Alignment explanation
Indices: 60332431--60332641 Score: 370
Period size: 110 Copynumber: 1.9 Consensus size: 110
60332421 TGGGATTGGT
60332431 TTATTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACAGGATGCGATCTGCTCTCTGCAACT
1 TTATTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACAGGATGCGATCTGCTCTCTGCAACT
*
60332496 TCAGAGAGATAAGATCTAAAGTTTTAATCTGCTCCATAGGATTGA
66 TCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCATAGGATTGA
*
60332541 TTATTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTCTGCAACT
1 TTATTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACAGGATGCGATCTGCTCTCTGCAACT
* *
60332606 TCAGAGAGATAAGATCTATCA-TTTTGATCCGCTCCA
66 TCAGAGAGATAAGATCTA-AAGTTTTAATCCGCTCCA
60332642 CTGCAACTTC
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
110 95 0.99
111 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (110 bp):
TTATTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACAGGATGCGATCTGCTCTCTGCAACT
TCAGAGAGATAAGATCTAAAGTTTTAATCCGCTCCATAGGATTGA
Found at i:60332650 original size:44 final size:42
Alignment explanation
Indices: 60332543--60332660 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 42
60332533 AGGATTGATT
*
60332543 ATTTTG-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGG
1 ATTTTGATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGC
** * * *
60332584 A-TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTATC
1 ATTTTGATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-GC
*
60332626 ATTTTGATCCGCTCCACTGCAACTTCAGGGAGATA
1 ATTTTGATCTGCTCCACTGCAACTTCAGGGAGATA
60332661 GGATTTACTA
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
40 24 0.39
41 9 0.15
42 1 0.02
43 8 0.13
44 19 0.31
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (42 bp):
ATTTTGATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGC
Found at i:60332749 original size:45 final size:45
Alignment explanation
Indices: 60332637--60332798 Score: 121
Period size: 46 Copynumber: 3.6 Consensus size: 45
60332627 TTTTGATCCG
* * *
60332637 CTCCACTGCAACTTCAGGGAGATAGGATTTACTATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTACTATCCTCAGTCTA
** * * * *
60332682 CTTCTGCTGCAACCTCGGGGAGATAAGACTTGCTATCCTCAAT-TCA
1 C-TCCACTGCAACTTCAGGGAGATAAGACTTACTATCCTCAGTCT-A
* * * ** * *
60332728 CTCCACTGCAACTTTAGGGAGATAGGA-TTATTGGCCTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTACTATCCTCAGTCTA
* * *
60332772 CTCCGCTGCATCTTCAAGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
60332799 TTCGCCATCT
Statistics
Matches: 89, Mismatches: 25, Indels: 7
0.74 0.21 0.06
Matches are distributed among these distances:
44 32 0.36
45 23 0.26
46 34 0.38
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTACTATCCTCAGTCTA
Found at i:60333028 original size:100 final size:99
Alignment explanation
Indices: 60332808--60333229 Score: 461
Period size: 100 Copynumber: 4.2 Consensus size: 99
60332798 ATTCGCCATC
* * * * * * * *
60332808 TTCAATCTGTTTGACTGTAATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATATGTTCCAC
1 TTCAATCTTTTTAATTGCAATGTC-GGGAAACCAGATCCACCGTCGTGGCTTCAATCTGTTCCAC
** * *
60332873 TACAC-TTCAGGGAAGTAAAATTCGCCGTTGT-GA
65 TACACAGCCAAGGAAGTAAGATTCGCCGTTGTGGA
** * ** *** *
60332906 CTTCAATCTTTTTAATTGCAATGTCAGGGAAATTAGATTCGTCGTCGCACCTTCAATCTGCTCCA
1 -TTCAATCTTTTTAATTGCAATGTC-GGGAAACCAGATCCACCGTCGTGGCTTCAATCTGTTCCA
* *
60332971 CTGCACAGCTAAGGAAGTAAGATTCGCCGTTGTGGA
64 CTACACAGCCAAGGAAGTAAGATTCGCCGTTGTGGA
* ** *
60333007 TTCAACCTTTTTAATCACAATGTCGAGGAAACCAGATCCACCATCGTGGCTTCAATCTGTTCCTA
1 TTCAATCTTTTTAATTGCAATGTCG-GGAAACCAGATCCACCGTCGTGGCTTCAATCTGTTCC-A
* * *
60333072 CTACACTGCCAAGGAAGTAAGATTCGCCCTTGTGGC
64 CTACACAGCCAAGGAAGTAAGATTCGCCGTTGTGGA
*
60333108 TTCAATCTTTTTAATTGCAATATCGGGGAAACCAGATCCACCGTCGTGGCTTCAATCTGTTCCAC
1 TTCAATCTTTTTAATTGCAATGTC-GGGAAACCAGATCCACCGTCGTGGCTTCAATCTGTTCCAC
* * *
60333173 TACACCGCCAAGGAAGTAAGATTCGCCTTTGTGGC
65 TACACAGCCAAGGAAGTAAGATTCGCCGTTGTGGA
*
60333208 TTCAATCTTTTTAATTGTAATG
1 TTCAATCTTTTTAATTGCAATG
60333230 CCAAAGAGAT
Statistics
Matches: 272, Mismatches: 46, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
99 57 0.21
100 124 0.46
101 90 0.33
102 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (99 bp):
TTCAATCTTTTTAATTGCAATGTCGGGAAACCAGATCCACCGTCGTGGCTTCAATCTGTTCCACT
ACACAGCCAAGGAAGTAAGATTCGCCGTTGTGGA
Found at i:60333114 original size:201 final size:199
Alignment explanation
Indices: 60332826--60333222 Score: 524
Period size: 201 Copynumber: 2.0 Consensus size: 199
60332816 GTTTGACTGT
* * * * *
60332826 AATGTCGGGGAAACAAGATTCACCGTCGTAGCTTCAATATGTTCCACTACACTTCAGGGAAGTAA
1 AATGTCGAGGAAACAAGATCCACCATCGTAGCTTCAATATGTTCCACTACACTCCAAGGAAGTAA
* * ** * **
60332891 AATTCGCCGTTGTGACTTCAATCTTTTTAATTGCAATGTCAGGGAAATTAGATTCGTCGTCGCAC
66 AATTCGCCCTTGTGACTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCACCGTCGCAC
* *
60332956 CTTCAATCTGCTCCACTGCACAGCTAAGGAAGTAAGATTCGCCGTTGTGGATTCAACCTTTTTAA
131 CTTCAATCTGCTCCACTACACAGCCAAGGAAGTAAGATTCGCCGTTGTGGATTCAACCTTTTTAA
60333021 TCAC
196 TCAC
* * *
60333025 AATGTCGAGGAAACCAGATCCACCATCGTGGCTTCAATCTGTTCCTACTACACTGCCAAGGAAGT
1 AATGTCGAGGAAACAAGATCCACCATCGTAGCTTCAATATGTTCC-ACTACACT-CCAAGGAAGT
* * * *
60333090 AAGATTCGCCCTTGTGGCTTCAATCTTTTTAATTGCAATATCGGGGAAACCAGATCCACCGTCGT
64 AAAATTCGCCCTTGTGACTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCACCGTCGC
** * * * * *
60333155 GGCTTCAATCTGTTCCACTACACCGCCAAGGAAGTAAGATTCGCCTTTGTGGCTTCAATCTTTTT
129 ACCTTCAATCTGCTCCACTACACAGCCAAGGAAGTAAGATTCGCCGTTGTGGATTCAACCTTTTT
60333220 AAT
194 AAT
60333223 TGTAATGCCA
Statistics
Matches: 168, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
199 39 0.23
200 8 0.05
201 121 0.72
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (199 bp):
AATGTCGAGGAAACAAGATCCACCATCGTAGCTTCAATATGTTCCACTACACTCCAAGGAAGTAA
AATTCGCCCTTGTGACTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCACCGTCGCAC
CTTCAATCTGCTCCACTACACAGCCAAGGAAGTAAGATTCGCCGTTGTGGATTCAACCTTTTTAA
TCAC
Found at i:60333233 original size:50 final size:50
Alignment explanation
Indices: 60332883--60333233 Score: 148
Period size: 50 Copynumber: 7.0 Consensus size: 50
60332873 TACACTTCAG
* * * * *
60332883 GGAAGTAAAATTCGCCGTTGTGACTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGTAAGATTCGCCCTTGTGGCTTCAATCTTTTTAATTGCAATGCCAA
* * * * * *** ** ** * *
60332933 GGAAATTAGATTCGTCGTCGCACCTTCAATCTGCTCCACTGCACA-GCTAA
1 GGAAGTAAGATTCGCCCTTGTGGCTTCAATCTTTTTAATTGCA-ATGCCAA
* * * ** * *
60332983 GGAAGTAAGATTCGCCGTTGTGGATTCAACCTTTTTAATCACAATGTCGA
1 GGAAGTAAGATTCGCCCTTGTGGCTTCAATCTTTTTAATTGCAATGCCAA
*** * * * * * * * *
60333033 GGAAACCAGATCCACCATCGTGGCTTCAATCTGTTCCT-ACTACACTGCCAA
1 GGAAGTAAGATTCGCCCTTGTGGCTTCAATCT-TT-TTAATTGCAATGCCAA
** **
60333084 GGAAGTAAGATTCGCCCTTGTGGCTTCAATCTTTTTAATTGCAATATCGG
1 GGAAGTAAGATTCGCCCTTGTGGCTTCAATCTTTTTAATTGCAATGCCAA
*** * * * * * ** * * **
60333134 GGAAACCAGATCCACCGTCGTGGCTTCAATCTGTTCCACTACACCGCCAA
1 GGAAGTAAGATTCGCCCTTGTGGCTTCAATCTTTTTAATTGCAATGCCAA
* *
60333184 GGAAGTAAGATTCGCCTTTGTGGCTTCAATCTTTTTAATTGTAATGCCAA
1 GGAAGTAAGATTCGCCCTTGTGGCTTCAATCTTTTTAATTGCAATGCCAA
60333234 AGAGATAGGA
Statistics
Matches: 198, Mismatches: 98, Indels: 10
0.65 0.32 0.03
Matches are distributed among these distances:
49 2 0.01
50 159 0.80
51 36 0.18
52 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (50 bp):
GGAAGTAAGATTCGCCCTTGTGGCTTCAATCTTTTTAATTGCAATGCCAA
Found at i:60333394 original size:50 final size:50
Alignment explanation
Indices: 60333293--60333396 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 50
60333283 TCCAAGTCTT
* *
60333293 AACGCCAGGGAGATAAGATTCACCGTCGTGGCTTCAATCTGCTCCGCTGC
1 AACGCCAGGGAGATAAGATTCACCGTCGTGGCTTCAATCTACTCCACTGC
* * * * *
60333343 AACGCCAGGGA-AGTAAGATTCGCTGTTGTGGCTTCAATCTATTCCATTGC
1 AACGCCAGGGAGA-TAAGATTCACCGTCGTGGCTTCAATCTACTCCACTGC
60333393 AACG
1 AACG
60333397 TCAAGGCGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
49 1 0.02
50 45 0.98
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (50 bp):
AACGCCAGGGAGATAAGATTCACCGTCGTGGCTTCAATCTACTCCACTGC
Found at i:60333512 original size:88 final size:88
Alignment explanation
Indices: 60333404--60333677 Score: 368
Period size: 88 Copynumber: 3.1 Consensus size: 88
60333394 ACGTCAAGGC
* * * * * *
60333404 GATAAAACTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAAAATCTGTTATTTTCAA
1 GATAAAGCTGGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAA
* * *
60333469 CTTACTCCACTACTGCTTAGGGA
66 CCTACTCCACTGCTGCTCAGGGA
* * *
60333492 GACAAAGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAA
1 GATAAAGCTGGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAA
60333557 CCTACTCCACTGCTGCTCAGGGA
66 CCTACTCCACTGCTGCTCAGGGA
* * * * * * *
60333580 GATAAGGCTGGGGTTTTCAATCTACTTTGCTGCCAATACAGGAAGACAAGATTTGCCATTTTCAA
1 GATAAAGCTGGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAA
*
60333645 CCTACTCCAATGCTGCTCAGGGA
66 CCTACTCCACTGCTGCTCAGGGA
60333668 GATAAAGCTG
1 GATAAAGCTG
60333678 AGGTTTCACT
Statistics
Matches: 162, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 162 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (88 bp):
GATAAAGCTGGTGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAA
CCTACTCCACTGCTGCTCAGGGA
Found at i:60333562 original size:45 final size:45
Alignment explanation
Indices: 60333503--60333650 Score: 111
Period size: 45 Copynumber: 3.3 Consensus size: 45
60333493 ACAAAGCTGG
* *
60333503 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCAACCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * *** * * * *
60333548 TATCTTCAACCTACTCCACTGCTGCT-CAGGGAGATAAG-GCTGG
1 TATCTTCAACCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
** * * * *
60333591 GGTTTTCAATCTACTTTGCTGCCAATACAGGAAGACAAGATTTGC
1 TATCTTCAACCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* *
60333636 CATTTTCAACCTACT
1 TATCTTCAACCTACT
60333651 CCAATGCTGC
Statistics
Matches: 72, Mismatches: 29, Indels: 4
0.69 0.28 0.04
Matches are distributed among these distances:
43 19 0.26
44 20 0.28
45 33 0.46
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (45 bp):
TATCTTCAACCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
Found at i:60340004 original size:12 final size:12
Alignment explanation
Indices: 60339983--60340016 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
60339973 CCCAAATGCT
*
60339983 TATTTGAACAAA
1 TATTTAAACAAA
*
60339995 TATTTAAACAAC
1 TATTTAAACAAA
60340007 TATTTAAACA
1 TATTTAAACA
60340017 CGTTGTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (12 bp):
TATTTAAACAAA
Found at i:60347019 original size:16 final size:17
Alignment explanation
Indices: 60346998--60347031 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
60346988 ACAAAATTAT
*
60346998 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
60347014 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
60347031 T
1 T
60347032 TAACTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:60347968 original size:42 final size:42
Alignment explanation
Indices: 60347906--60348005 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
60347896 CTATATGAAC
*
60347906 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
* * *
60347948 GGTACTAAGTGTGCGAAATTAAAATGATGATGTTGTATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
60347990 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
60348006 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
Found at i:60356989 original size:27 final size:27
Alignment explanation
Indices: 60356959--60357036 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 27
60356949 AATTTCCCCA
*
60356959 TGTTTACTATCTTGACGGACTATCTCG
1 TGTTTATTATCTTGACGGACTATCTCG
* *
60356986 TGTTTATTTTCTGGTA--GACTATCTCG
1 TGTTTATTATCTTG-ACGGACTATCTCG
* * *
60357012 TGTTTATTGTCCTGACGAACTATCT
1 TGTTTATTATCTTGACGGACTATCT
60357037 ACGATGTCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.02
26 21 0.51
27 18 0.44
28 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.45
Consensus pattern (27 bp):
TGTTTATTATCTTGACGGACTATCTCG
Found at i:60359467 original size:45 final size:44
Alignment explanation
Indices: 60359417--60359587 Score: 148
Period size: 45 Copynumber: 3.8 Consensus size: 44
60359407 TGTCATAGTG
* * *
60359417 TCTTTCAATAATGGTCTTATTCGTTTGATTCATGATGCTATAACA
1 TCTTTCAAT-ATGGTCTTATTCGTTAGAATCATGATGCCATAACA
* *
60359462 TCTTTCAACTATGGTCTTACTT-GTTAGAATCGTGATGCCATAACG
1 TCTTTCAA-TATGGTCTTA-TTCGTTAGAATCATGATGCCATAACA
* * * * * *
60359507 TCTTTCAGTTATCGTCTTACTCGTTAAAATCGTGATACCATAA-A
1 TCTTTCA-ATATGGTCTTATTCGTTAGAATCATGATGCCATAACA
** *
60359551 GTCTTTCAACTATGGTCTTGCTCGTTAAAATCATGAT
1 -TCTTTCAA-TATGGTCTTATTCGTTAGAATCATGAT
60359588 ACCTTAATGT
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
44 1 0.01
45 101 0.96
46 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (44 bp):
TCTTTCAATATGGTCTTATTCGTTAGAATCATGATGCCATAACA
Found at i:60359588 original size:45 final size:45
Alignment explanation
Indices: 60359462--60359611 Score: 192
Period size: 45 Copynumber: 3.3 Consensus size: 45
60359452 TGCTATAACA
* * * *
60359462 TCTTTCAACTATGGTCTTACTTGTTAGAATCGTGATGCCATAACG
1 TCTTTCAACTATGGTCTTACTCGTTAAAATCGTGATACCATAAAG
** *
60359507 TCTTTCAGTTATCGTCTTACTCGTTAAAATCGTGATACCATAAAG
1 TCTTTCAACTATGGTCTTACTCGTTAAAATCGTGATACCATAAAG
* * * *
60359552 TCTTTCAACTATGGTCTTGCTCGTTAAAATCATGATACCTTAATG
1 TCTTTCAACTATGGTCTTACTCGTTAAAATCGTGATACCATAAAG
*
60359597 TCTTTCAGCTATGGT
1 TCTTTCAACTATGGT
60359612 ATGATACCTT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 90 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.39
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTCGTTAAAATCGTGATACCATAAAG
Found at i:60360339 original size:16 final size:16
Alignment explanation
Indices: 60360318--60360352 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
60360308 AGTCCTTGTA
60360318 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
60360334 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
60360350 ATT
1 ATT
60360353 AAAATTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:60365137 original size:21 final size:21
Alignment explanation
Indices: 60365111--60365153 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
60365101 TTTTGCCTAA
*
60365111 AATATGAATTTGATTGAATTG
1 AATATGAATTTGATTAAATTG
*
60365132 AATATGAATTTTATTAAATTG
1 AATATGAATTTGATTAAATTG
60365153 A
1 A
60365154 GTTAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (21 bp):
AATATGAATTTGATTAAATTG
Found at i:60370969 original size:27 final size:27
Alignment explanation
Indices: 60370934--60370987 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
60370924 ATCAGGTTAT
60370934 AATCATGCATTTCAAACACTGTACATA
1 AATCATGCATTTCAAACACTGTACATA
*
60370961 AATCATGCATTTCAAACATTGTACATA
1 AATCATGCATTTCAAACACTGTACATA
60370988 TCAATCATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATCATGCATTTCAAACACTGTACATA
Found at i:60373695 original size:35 final size:35
Alignment explanation
Indices: 60373635--60373753 Score: 188
Period size: 34 Copynumber: 3.4 Consensus size: 35
60373625 GATAATTAAA
*
60373635 CCGAAACACACCAGATGCTCATAAGAGCTAATCCAT
1 CCGAAACACACCA-ATGCTCATAAGAGCTAGTCCAT
60373671 CCGAAACACACCAATGCTCATAAGAGCTAGTCCAAT
1 CCGAAACACACCAATGCTCATAAGAGCTAGTCC-AT
*
60373707 -CG-AACACACCAATGCTCATAAGAGCTAGTCCAA
1 CCGAAACACACCAATGCTCATAAGAGCTAGTCCAT
60373740 CCGAAACACACCAA
1 CCGAAACACACCAA
60373754 AACAGTGAGT
Statistics
Matches: 78, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
33 1 0.01
34 31 0.40
35 31 0.40
36 15 0.19
ACGTcount: A:0.40, C:0.32, G:0.13, T:0.14
Consensus pattern (35 bp):
CCGAAACACACCAATGCTCATAAGAGCTAGTCCAT
Found at i:60383412 original size:33 final size:33
Alignment explanation
Indices: 60383374--60383437 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
60383364 AGGCCACCAG
* *
60383374 AATTAGAATGAGGC-AGATGAGATCCAGCCCAAC
1 AATTAGAATGAGGCGA-ATGAGACCCAACCCAAC
*
60383407 AATTAGAATTAGGCGAATGAGACCCAACCCA
1 AATTAGAATGAGGCGAATGAGACCCAACCCA
60383438 TGTACAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.16
Consensus pattern (33 bp):
AATTAGAATGAGGCGAATGAGACCCAACCCAAC
Found at i:60392823 original size:25 final size:25
Alignment explanation
Indices: 60392789--60392838 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
60392779 ACCTATCCGG
60392789 GCAATTTACCAAAAAAAGCCAATTT
1 GCAATTTACCAAAAAAAGCCAATTT
60392814 GCAATTTACCAAAAAAAGCCAATTT
1 GCAATTTACCAAAAAAAGCCAATTT
60392839 TTTTAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (25 bp):
GCAATTTACCAAAAAAAGCCAATTT
Found at i:60396554 original size:24 final size:24
Alignment explanation
Indices: 60396539--60396590 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60396529 AATCAAAGTC
60396539 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
60396563 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
60396587 AAAT
1 AAAT
60396591 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:60399992 original size:512 final size:512
Alignment explanation
Indices: 60399028--60400055 Score: 1795
Period size: 512 Copynumber: 2.0 Consensus size: 512
60399018 GTATTTTTAT
* *
60399028 CTGTTTTCCCATATGTTTTTCAATAATAGTTTTCCAAGACTTAAATGCGGAAAACATATCTCTTT
1 CTGTTTTCCCATATATTTTTCAATAATAGTTTTCCAAGACTTAAATACGGAAAACATATCTCTTT
* * **
60399093 TTTGTTTCAGGAAGAACACCCAAACTTTTCTAAAAAAATCATCAATAAAAGTTAGGATATAATTA
66 TCTATTTCAGGAAGAACACCCAAACTTTTCTAAAAAAATCATCAATAAAAGTTAACATATAATTA
60399158 GCTCCACTTCTCAAAGCCACTCTAGACGACCCCCACAGATCAGAATGAATATACTCCAACATTCC
131 GCTCCACTTCTCAAAGCCACTCTAGACGACCCCCACAGATCAGAATGAATATACTCCAACATTCC
* *
60399223 CTTCGTGTTATGGATTCCTCTGGTGAATCGAACTCTCTTTTCCTTCCCAAAAACACAGTGCTCAT
196 CTTCGTGTTATGGATTCCTCTAGTGAATCGAACTCTCTTTTCCTTCCCAAAAACACAGTGCTCAC
* * *
60399288 AGAATTTTAGTTTGCAAATTCCTTGCCCATCAAGAAGTCTTCTTTTGCTCAATTCTATTATGTCA
261 AGAACTTTAGTTTGCAAATTCCTTGCCCATCAAGAAGTCCTCTTTTGCTCAATTCTATCATGTCA
60399353 TTCTCACTCATATGCCCTAGGCGCATATGCCAAAGTTTAGTAATATCATCATCTGACAAGGAAGA
326 TTCTCACTCATATGCCCTAGGCGCATATGCCAAAGTTTAGTAATATCATCATCTGACAAGGAAGA
*
60399418 GGAAGCGACAGCTGCATCACCAGTAACAGTAGAACCTTGTAAAAAATATAACTTGACAGTCTTTC
391 GGAAACGACAGCTGCATCACCAGTAACAGTAGAACCTTGTAAAAAATATAACTTGACAGTCTTTC
*
60399483 TCTACCTTTTCATCACAACGAGGGAACCATTGGAAAGCTTCAAAACCTCACTTTCAG
456 TCTACCCTTTCATCACAACGAGGGAACCATTGGAAAGCTTCAAAACCTCACTTTCAG
*
60399540 CTGTTTTCCCATCTATTTTTCAATAATAGTTTTCCAAGACTTAAATACGGAAAACATATCTCTTT
1 CTGTTTTCCCATATATTTTTCAATAATAGTTTTCCAAGACTTAAATACGGAAAACATATCTCTTT
* *
60399605 TCTATTTTAGGAAGAATACCCAAACTTTTCTAAAAAAATCATCAATAAAAGTTAACATATAATTA
66 TCTATTTCAGGAAGAACACCCAAACTTTTCTAAAAAAATCATCAATAAAAGTTAACATATAATTA
* * * *
60399670 GCTCCACTTCTCGACGGCACTCTGGACGACCCCCACAGATCAGAATGAATATACTCCAACATTCC
131 GCTCCACTTCTCAAAGCCACTCTAGACGACCCCCACAGATCAGAATGAATATACTCCAACATTCC
* *
60399735 CTTCGTGTTATGGATTCCTCTAGTGAATCGAACTCTCTTTTGCTTCCCAAAAACGCAGTGCTCAC
196 CTTCGTGTTATGGATTCCTCTAGTGAATCGAACTCTCTTTTCCTTCCCAAAAACACAGTGCTCAC
*
60399800 AGAACTTTAGTTTGCAAATTCCTTGCCCATCAAGAAGTCCTCTTTTGCTCAATTCTGTCATGTCA
261 AGAACTTTAGTTTGCAAATTCCTTGCCCATCAAGAAGTCCTCTTTTGCTCAATTCTATCATGTCA
*
60399865 TTCTCACTCATATGCCCTAGGTGCATATGCCAAAGTTTAGTAATATCATCATCTGACAAGGAAGA
326 TTCTCACTCATATGCCCTAGGCGCATATGCCAAAGTTTAGTAATATCATCATCTGACAAGGAAGA
* * *
60399930 GGAAATGACAGCTGCATCACCAGTAACAGTAGAACCTTGTAAAACATATAACTTGGCAGTCTTTC
391 GGAAACGACAGCTGCATCACCAGTAACAGTAGAACCTTGTAAAAAATATAACTTGACAGTCTTTC
* *
60399995 TCTACCCTTTCATCACAACGAGGGAACCCTTGGAAAGCTTCAAAACCTCACTTTTAG
456 TCTACCCTTTCATCACAACGAGGGAACCATTGGAAAGCTTCAAAACCTCACTTTCAG
60400052 CTGT
1 CTGT
60400056 GTATCTGTAC
Statistics
Matches: 487, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
512 487 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (512 bp):
CTGTTTTCCCATATATTTTTCAATAATAGTTTTCCAAGACTTAAATACGGAAAACATATCTCTTT
TCTATTTCAGGAAGAACACCCAAACTTTTCTAAAAAAATCATCAATAAAAGTTAACATATAATTA
GCTCCACTTCTCAAAGCCACTCTAGACGACCCCCACAGATCAGAATGAATATACTCCAACATTCC
CTTCGTGTTATGGATTCCTCTAGTGAATCGAACTCTCTTTTCCTTCCCAAAAACACAGTGCTCAC
AGAACTTTAGTTTGCAAATTCCTTGCCCATCAAGAAGTCCTCTTTTGCTCAATTCTATCATGTCA
TTCTCACTCATATGCCCTAGGCGCATATGCCAAAGTTTAGTAATATCATCATCTGACAAGGAAGA
GGAAACGACAGCTGCATCACCAGTAACAGTAGAACCTTGTAAAAAATATAACTTGACAGTCTTTC
TCTACCCTTTCATCACAACGAGGGAACCATTGGAAAGCTTCAAAACCTCACTTTCAG
Found at i:60401473 original size:24 final size:24
Alignment explanation
Indices: 60401446--60401502 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
60401436 AAACCTAATT
60401446 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
* *
60401470 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATTATG
*
60401494 CTCATAAAT
1 CTAATAAAT
60401503 ACTAAATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:60401508 original size:24 final size:24
Alignment explanation
Indices: 60401458--60401509 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
60401448 AATCAAAGTC
* **
60401458 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
60401482 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
60401506 AAAT
1 AAAT
60401510 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:60403473 original size:63 final size:65
Alignment explanation
Indices: 60403399--60403538 Score: 196
Period size: 64 Copynumber: 2.2 Consensus size: 65
60403389 CCCAGCCGTG
* * *
60403399 CACACGACCGTGTTTTCTG-CCCGTGTGGTC-CTAAATCACAAACAATGAGTCACACGGCCTGGA
1 CACACGCCCGTGTTCTCTGACCCGTGTGATCTCTAAATCACAAACAATGAGTCACACGGCCTGGA
* *
60403462 CACACGCCCGTG-TCTCTGACCCGTGTGATCTCTAAATCACAAACAGTGAGTCACATGGCCTGGA
1 CACACGCCCGTGTTCTCTGACCCGTGTGATCTCTAAATCACAAACAATGAGTCACACGGCCTGGA
* *
60403526 CACATGCTCGTGT
1 CACACGCCCGTGT
60403539 CATTGGCCCG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
62 5 0.07
63 21 0.31
64 41 0.61
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (65 bp):
CACACGCCCGTGTTCTCTGACCCGTGTGATCTCTAAATCACAAACAATGAGTCACACGGCCTGGA
Found at i:60405940 original size:41 final size:41
Alignment explanation
Indices: 60405887--60406020 Score: 116
Period size: 41 Copynumber: 3.4 Consensus size: 41
60405877 ACTTTGAGTT
*
60405887 GATGAGACACTGGGTGTCAATTTACTACTTCGAATTAATTC
1 GATGAGGCACTGGGTGTCAATTTACTACTTCGAATTAATTC
* * * * * **
60405928 GATAAGGCACTGGGAGCCAATTTACTTC-T-G-TTTAGCT-
1 GATGAGGCACTGGGTGTCAATTTACTACTTCGAATTAATTC
* * * * *
60405965 GATGAGACACTGAGTGTCAAATTATTACTTCGAATT-ATCC
1 GATGAGGCACTGGGTGTCAATTTACTACTTCGAATTAATTC
60406005 GATGAGGCACTGGGTG
1 GATGAGGCACTGGGTG
60406021 CCAAACTGGT
Statistics
Matches: 67, Mismatches: 22, Indels: 9
0.68 0.22 0.09
Matches are distributed among these distances:
37 20 0.30
38 5 0.07
39 2 0.03
40 17 0.25
41 23 0.34
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (41 bp):
GATGAGGCACTGGGTGTCAATTTACTACTTCGAATTAATTC
Found at i:60406009 original size:40 final size:40
Alignment explanation
Indices: 60405887--60406025 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 40
60405877 ACTTTGAGTT
* * *
60405887 GATGAGACACTGGGTGTCAATTTACTACTTCGAATTAATTC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATCC
* * * * * * *
60405928 GATAAGGCACTGGGAG-CCAA-T-TTACTTCTG-TTTAGCT
1 GATGAGACACTGGGTGTCAAATTATTACTTC-GAATTATCC
*
60405965 GATGAGACACTGAGTGTCAAATTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
* *
60406005 GATGAGGCACTGGGTGCCAAA
1 GATGAGACACTGGGTGTCAAA
60406026 CTGGTGTGTT
Statistics
Matches: 72, Mismatches: 21, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
37 13 0.18
38 11 0.15
39 4 0.06
40 31 0.43
41 13 0.18
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
Found at i:60408067 original size:20 final size:21
Alignment explanation
Indices: 60408042--60408091 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
60408032 GAAAGGAGTA
*
60408042 AAAAGAAATAA-ACGAAAAAG
1 AAAAGAAAGAACACGAAAAAG
*
60408062 AAAAGAGAAGAACATGAAAAAG
1 AAAAGA-AAGAACACGAAAAAG
*
60408084 GAAAGAAA
1 AAAAGAAA
60408092 AAAAAGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 6 0.24
22 13 0.52
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (21 bp):
AAAAGAAAGAACACGAAAAAG
Found at i:60413971 original size:21 final size:21
Alignment explanation
Indices: 60413947--60413989 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
60413937 CATTCTTCCT
* *
60413947 TCTTAAATTCTCAATTTTCAA
1 TCTTAAATCCTCAATCTTCAA
*
60413968 TCTTCAATCCTCAATCTTCAA
1 TCTTAAATCCTCAATCTTCAA
60413989 T
1 T
60413990 ATCCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (21 bp):
TCTTAAATCCTCAATCTTCAA
Found at i:60414035 original size:21 final size:20
Alignment explanation
Indices: 60413996--60414052 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
60413986 CAATATCCAT
*
60413996 TTTCCAATTTTATATTTTCAA
1 TTTCAAATTTTA-ATTTTCAA
*
60414017 TCTTGAAATTTTAATTTTCAA
1 T-TTCAAATTTTAATTTTCAA
60414038 TTTCAAATTTATAAT
1 TTTCAAATTT-TAAT
60414053 CCTTAGTCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 8 0.26
21 14 0.45
22 9 0.29
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTCAAATTTTAATTTTCAA
Found at i:60418276 original size:12 final size:12
Alignment explanation
Indices: 60418259--60418296 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
60418249 GGTTGTTTGA
*
60418259 AAAAATGGGGAG
1 AAAAATGGTGAG
60418271 AAAAATGGTGAG
1 AAAAATGGTGAG
60418283 -AAAATGGTGAG
1 AAAAATGGTGAG
60418294 AAA
1 AAA
60418297 TAAATGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 11 0.46
12 13 0.54
ACGTcount: A:0.53, C:0.00, G:0.34, T:0.13
Consensus pattern (12 bp):
AAAAATGGTGAG
Found at i:60418286 original size:11 final size:11
Alignment explanation
Indices: 60418260--60418296 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
60418250 GTTGTTTGAA
*
60418260 AAAATGGGGAG
1 AAAATGGTGAG
60418271 AAAAATGGTGAG
1 -AAAATGGTGAG
60418283 AAAATGGTGAG
1 AAAATGGTGAG
60418294 AAA
1 AAA
60418297 TAAATGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.35, T:0.14
Consensus pattern (11 bp):
AAAATGGTGAG
Found at i:60422605 original size:43 final size:43
Alignment explanation
Indices: 60422558--60422681 Score: 185
Period size: 43 Copynumber: 2.9 Consensus size: 43
60422548 AATCAATTAT
* * * *
60422558 CGATGCCACTATCCCAGACAGGGTCTTATACGTAAATCATATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATATA
*
60422601 CGATGCCAATGTCCCAGACATGATCTTACACGTAAATCATATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATATA
* *
60422644 CGATGCCAATGTCCCAAACATGGTCTTACATGTAAATC
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAATC
60422682 TCAAATCAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATATA
Found at i:60422712 original size:44 final size:43
Alignment explanation
Indices: 60422560--60422714 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 43
60422550 TCAATTATCG
* * * * * *
60422560 ATGCCACTATCCCAGACAGGGTCTTATACGTAAATCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACA
* * *
60422603 ATGCCAATGTCCCAGACATGATCTTACACGTAAATCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACA
* *
60422646 ATGCCAATGTCCCAAACATGGTCTTACATGTAAATCTCAAAT-CA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAA--TCAAATACA
*
60422690 ATGCC-ATCGTCCCAGACGTGGTCTT
1 ATGCCAAT-GTCCCAGACATGGTCTT
60422715 TCTCAATATT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
43 71 0.73
44 21 0.22
45 5 0.05
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACA
Found at i:60430019 original size:43 final size:43
Alignment explanation
Indices: 60429994--60430117 Score: 185
Period size: 43 Copynumber: 2.9 Consensus size: 43
60429984 AATCAATTAT
* * *
60429994 CGATGCCACTGTCCCAGACAGGGTCTTATACGTGAATCATATA
1 CGATGCCAATGTCCCAGACATGGTCTTATACGTAAATCATATA
* * *
60430037 CGATGCCAATGTCCTAAACATGGTCTTACACGTAAATCATATA
1 CGATGCCAATGTCCCAGACATGGTCTTATACGTAAATCATATA
*
60430080 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAATC
1 CGATGCCAATGTCCCAGACATGGTCTTATACGTAAATC
60430118 TCAAATCAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTATACGTAAATCATATA
Found at i:60430148 original size:44 final size:43
Alignment explanation
Indices: 60429996--60430150 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 43
60429986 TCAATTATCG
* * * * * *
60429996 ATGCCACTGTCCCAGACAGGGTCTTATACGTGAATCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACA
* * * *
60430039 ATGCCAATGTCCTAAACATGGTCTTACACGTAAATCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACA
60430082 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAA--TCAAATACA
*
60430126 ATGCC-ATCGTCCCAGACGTGGTCTT
1 ATGCCAAT-GTCCCAGACATGGTCTT
60430151 TCTCAATATT
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
43 71 0.72
44 22 0.22
45 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAAATACA
Found at i:60434267 original size:41 final size:43
Alignment explanation
Indices: 60434161--60434274 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 43
60434151 TAACCGTTAC
* **
60434161 ATGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAAGGAT
* *
60434204 CTCGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AATGAT
1 AT-GGTGGAATCAGCACTTAGCAACCACCTTATAATCAAAGGAT
*
60434247 ATGG-GGAATCAGCACATAGCAACC-CCTT
1 ATGGTGGAATCAGCACTTAGCAACCACCTT
60434275 TTTGATCAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 4 0.06
41 19 0.30
42 2 0.03
43 7 0.11
44 31 0.49
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAAGGAT
Found at i:60434283 original size:41 final size:41
Alignment explanation
Indices: 60434166--60434315 Score: 126
Period size: 41 Copynumber: 3.6 Consensus size: 41
60434156 GTTACATGGT
* ** * *
60434166 GGAATCAGCACTTAGCAACCACC-TCATGTTCAAAGGATCTCGGT
1 GGAATCAGCACTTAGCAACC-CCTTTATAATC-AATGAT-TC-GA
*
60434210 GGAATCAGCACTTAGCAACCACC-TTATAATCAATGATAT-GG
1 GGAATCAGCACTTAGCAACC-CCTTTATAATCAATGAT-TCGA
* * * *
60434251 GGAATCAGCACATAGCAACCCCTTTTTGATCAATTATTCGA
1 GGAATCAGCACTTAGCAACCCCTTTATAATCAATGATTCGA
*
60434292 GGAATCTGCACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCCCTT
60434316 ACATTCAAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
40 3 0.03
41 54 0.59
43 6 0.07
44 28 0.31
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTTATAATCAATGATTCGA
Found at i:60437629 original size:22 final size:22
Alignment explanation
Indices: 60437589--60437630 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
60437579 TGGATATGCC
*
60437589 ACCACTAATTTGTAAATAAATT
1 ACCACTAATTTGCAAATAAATT
*
60437611 ACCACTAATTTGCAGATAAA
1 ACCACTAATTTGCAAATAAA
60437631 ATGCCACTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (22 bp):
ACCACTAATTTGCAAATAAATT
Found at i:60437637 original size:22 final size:22
Alignment explanation
Indices: 60437589--60437638 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
60437579 TGGATATGCC
* *
60437589 ACCACTAATTTGTAAATAAATT
1 ACCACTAATTTGCAAATAAAAT
*
60437611 ACCACTAATTTGCAGATAAAAT
1 ACCACTAATTTGCAAATAAAAT
*
60437633 GCCACT
1 ACCACT
60437639 GATAACACTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (22 bp):
ACCACTAATTTGCAAATAAAAT
Found at i:60439814 original size:21 final size:21
Alignment explanation
Indices: 60439788--60439828 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60439778 TGTAAATTTA
*
60439788 TAAAAATTCCAATAAAAATTC
1 TAAAAATTCCAAAAAAAATTC
*
60439809 TAAAAATTTCAAAAAAAATT
1 TAAAAATTCCAAAAAAAATT
60439829 AAAAAATATA
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:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATTCCAAAAAAAATTC
Found at i:60439834 original size:21 final size:21
Alignment explanation
Indices: 60439789--60439855 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
60439779 GTAAATTTAT
* * **
60439789 AAAAATTCCAATAAAAATTCT
1 AAAAATTTCAAAAAAAATTAA
60439810 AAAAATTTCAAAAAAAATTAA
1 AAAAATTTCAAAAAAAATTAA
*
60439831 AAAATATATT--TAAAAAATTAA
1 AAAA-AT-TTCAAAAAAAATTAA
60439852 AAAA
1 AAAA
60439856 TTAAAACTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 35 0.90
22 2 0.05
23 2 0.05
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAATTTCAAAAAAAATTAA
Found at i:60447055 original size:106 final size:106
Alignment explanation
Indices: 60446935--60447154 Score: 268
Period size: 106 Copynumber: 2.1 Consensus size: 106
60446925 TCTTAGGTTT
* * * **
60446935 TTATTTGTTTTTTTTTCTTAAGATTGTATTGACCCTTTTGACTTGAAG-AGGGATGACAACCCAA
1 TTATTTGTTTTTTTTGCTTAAGAATGTATTGACCCCTTTGACGCGAAGTA-GGATGACAACCCAA
* *
60446999 GCACCCCACCCCGGTTACTCAGCCCAACACACTCCTATTTTA
65 GCACCCCAACCCAGTTACTCAGCCCAACACACTCCTATTTTA
* * * *
60447041 TTATTT-TTATTTTTTGGTTAAGAATGTTTTGGCCCCTTTGACGCGAAGTAGGATGATAACCCAA
1 TTATTTGTT-TTTTTTGCTTAAGAATGTATTGACCCCTTTGACGCGAAGTAGGATGACAACCCAA
* * *
60447105 GCGCCCCAACCCAGTTACTCAGCCCAACACACTCTTAATTT-
65 GCACCCCAACCCAGTTACTCAGCCCAACACACTCCTATTTTA
60447146 TT-TTTGTTT
1 TTATTTGTTT
60447155 AATTCCAGTT
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
104 4 0.04
105 6 0.06
106 86 0.89
107 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (106 bp):
TTATTTGTTTTTTTTGCTTAAGAATGTATTGACCCCTTTGACGCGAAGTAGGATGACAACCCAAG
CACCCCAACCCAGTTACTCAGCCCAACACACTCCTATTTTA
Found at i:60449724 original size:5 final size:5
Alignment explanation
Indices: 60449684--60449717 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
60449674 TATTAACATG
60449684 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
60449718 AATAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:60450671 original size:25 final size:24
Alignment explanation
Indices: 60450643--60450924 Score: 167
Period size: 23 Copynumber: 12.0 Consensus size: 24
60450633 GGACAGCTCT
60450643 TATACATCAGAAATT-GAGCAGCATA
1 TATACATCA-AAATTGGA-CAGCATA
* * *
60450668 TATATATATAAAATTGGACAGCATT
1 TATACAT-CAAAATTGGACAGCATA
* * *
60450693 TATACATCAAAATTTGATAGCATG
1 TATACATCAAAATTGGACAGCATA
* * *
60450717 TATATA-CAAAATTGGACAACATT
1 TATACATCAAAATTGGACAGCATA
* *
60450740 TATTCACCAAAATTAGG-CAGCATA
1 TATACATCAAAATT-GGACAGCATA
* * *
60450764 TATATA-CTAATTTGGACAGCACT-
1 TATACATCAAAATTGGACAGCA-TA
* *
60450787 TATACA-CAAAATTTGACAGCATG
1 TATACATCAAAATTGGACAGCATA
*
60450810 TAT--ATGCAAAATTGGACAGCATT
1 TATACAT-CAAAATTGGACAGCATA
* * *
60450833 TATTCACCAAAATTGGGCAGCATA
1 TATACATCAAAATTGGACAGCATA
* * * *
60450857 CATATA-CCAATTTGGACAGCACT-
1 TATACATCAAAATTGGACAGCA-TA
* *
60450880 TATACA-CAAAATTTGACAGCATG
1 TATACATCAAAATTGGACAGCATA
60450903 TAT--ATGCAAAATTGGACAGCAT
1 TATACAT-CAAAATTGGACAGCAT
60450925 TTATTCACCA
Statistics
Matches: 200, Mismatches: 42, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
21 2 0.01
22 4 0.02
23 111 0.56
24 54 0.27
25 26 0.13
26 3 0.01
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (24 bp):
TATACATCAAAATTGGACAGCATA
Found at i:60450820 original size:93 final size:93
Alignment explanation
Indices: 60450660--60450949 Score: 454
Period size: 93 Copynumber: 3.1 Consensus size: 93
60450650 CAGAAATTGA
* * * * *
60450660 GCAGCATATATATATATAAAATTGGACAGCATTTATACATCAAAATTTGATAGCATGTATATACA
1 GCAGCATATATATA-CT-AATTTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATGCA
*
60450725 AAATTGGACAACATTTATTCACCAAAATTAG
63 AAATTGGACAGCATTTATTCACCAAAATTAG
60450756 GCAGCATATATATACTAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAA
1 GCAGCATATATATACTAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAA
*
60450821 TTGGACAGCATTTATTCACCAAAATTGG
66 TTGGACAGCATTTATTCACCAAAATTAG
* *
60450849 GCAGCATACATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAA
1 GCAGCATATATATACTAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAA
*
60450914 TTGGACAGCATTTATTCACCAAAAATAG
66 TTGGACAGCATTTATTCACCAAAATTAG
*
60450942 GTAGCATA
1 GCAGCATA
60450950 ATTAACACAA
Statistics
Matches: 182, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
93 148 0.81
94 19 0.10
95 1 0.01
96 14 0.08
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (93 bp):
GCAGCATATATATACTAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATGCAAAA
TTGGACAGCATTTATTCACCAAAATTAG
Found at i:60450964 original size:47 final size:47
Alignment explanation
Indices: 60450631--60450937 Score: 325
Period size: 47 Copynumber: 6.5 Consensus size: 47
60450621 TCTACCCTGT
* *
60450631 TTGGACAGC-TCTTATACATCAGAAA-TTGAGCAGCATATATATATATAAAA
1 TTGGACAGCAT-TTATACACCA-AAATTTGA-CAGC--ATATATATACAAAA
* * *
60450681 TTGGACAGCATTTATACATCAAAATTTGATAGCATGTATATACAAAA
1 TTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAA
* * * * * *
60450728 TTGGACAACATTTATTCACCAAAATTAGGCAGCATATATATACTAAT
1 TTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAA
* * *
60450775 TTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATGCAAAA
1 TTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAA
* * * * * *
60450821 TTGGACAGCATTTATTCACCAAAATTGGGCAGCATACATATACCAAT
1 TTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAA
* * *
60450868 TTGGACAGCACTTATACA-CAAAATTTGACAGCATGTATATGCAAAA
1 TTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAA
*
60450914 TTGGACAGCATTTATTCACCAAAA
1 TTGGACAGCATTTATACACCAAAA
60450938 ATAGGTAGCA
Statistics
Matches: 212, Mismatches: 41, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
46 75 0.35
47 107 0.50
49 6 0.03
50 23 0.11
51 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (47 bp):
TTGGACAGCATTTATACACCAAAATTTGACAGCATATATATACAAAA
Found at i:60451732 original size:28 final size:28
Alignment explanation
Indices: 60451697--60451823 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
60451687 ATTAATAAGT
* * *
60451697 TCGCACACTTAGTGCTTAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
60451725 TCACACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
60451753 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* * *
60451781 TCGCACATTTAGTGCTTCACAATTAAATT
1 TCGCACACTTAGTGCTTTACAATTAAA-C
60451810 TCGCACACTTAGTG
1 TCGCACACTTAGTG
60451824 TCGAAAGTCA
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 74 0.85
29 13 0.15
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:60456466 original size:33 final size:33
Alignment explanation
Indices: 60456402--60456474 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
60456392 TTCCTTTTGG
**
60456402 AAATCAACAATTTGCCATTTTATTTACTGTTGA
1 AAATCAACAATTTGCCATTGAATTTACTGTTGA
* * ** *
60456435 AAATCAACAGTTTGTCATTGAATTTGTTGTTGG
1 AAATCAACAATTTGCCATTGAATTTACTGTTGA
60456468 AAATCAA
1 AAATCAA
60456475 GCACATTAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
AAATCAACAATTTGCCATTGAATTTACTGTTGA
Found at i:60474116 original size:25 final size:25
Alignment explanation
Indices: 60474088--60474219 Score: 74
Period size: 25 Copynumber: 5.3 Consensus size: 25
60474078 CCCATTATAT
*
60474088 GGCTATTCGGAGCTTCCCGATTAAA
1 GGCTCTTCGGAGCTTCCCGATTAAA
* ** *
60474113 GGCTCTTTGTGAGCTTCTTGATTAAT
1 GGCTCTTCG-GAGCTTCCCGATTAAA
* * *
60474139 GGCTCTCCGGAGCTTTCCGA-T-AT
1 GGCTCTTCGGAGCTTCCCGATTAAA
* * *
60474162 GGCTCGTT-TGAACTTCCCGATATATA
1 GGCTC-TTCGGAGCTTCCCGAT-TAAA
* * * *
60474188 -GCTATCCGGAGCTTCCTGATTAAT
1 GGCTCTTCGGAGCTTCCCGATTAAA
60474212 GGCTCTTC
1 GGCTCTTC
60474220 AAAGCTACCC
Statistics
Matches: 75, Mismatches: 25, Indels: 14
0.66 0.22 0.12
Matches are distributed among these distances:
23 16 0.21
24 5 0.07
25 34 0.45
26 20 0.27
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (25 bp):
GGCTCTTCGGAGCTTCCCGATTAAA
Found at i:60474310 original size:25 final size:25
Alignment explanation
Indices: 60474282--60474330 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
60474272 TTTTCCATTA
* *
60474282 TACAGCCCAGATAAGCTTTCTGTTT
1 TACAGCCCACATAAGCTTCCTGTTT
* *
60474307 TACAGCTCACATGAGCTTCCTGTT
1 TACAGCCCACATAAGCTTCCTGTT
60474331 ATGTGGCTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (25 bp):
TACAGCCCACATAAGCTTCCTGTTT
Found at i:60493150 original size:34 final size:33
Alignment explanation
Indices: 60493102--60493234 Score: 158
Period size: 34 Copynumber: 3.9 Consensus size: 33
60493092 GTTTAAAAAA
* *
60493102 TAAATTAAGGTTTAGAGTTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTAG-GTTTTTTAAAAAATTAAT
* **
60493136 TAAATTAGGTTTTAGGGATTTTAAACAAATTAAT
1 TAAATTAGGGTTTAGGTTTTTTAAA-AAATTAAT
*
60493170 TAAATTAGGGTTTAGAGTTTTTAAAAAAATTAAT
1 TAAATTAGGGTTTAG-GTTTTTTAAAAAATTAAT
* *
60493204 TAAATTAGGGTTTAGTTTTTTTTAAATAATT
1 TAAATTAGGGTTTAG-GTTTTTTAAAAAATT
60493235 TTGTGTTTAG
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
33 7 0.08
34 70 0.83
35 7 0.08
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.46
Consensus pattern (33 bp):
TAAATTAGGGTTTAGGTTTTTTAAAAAATTAAT
Found at i:60493567 original size:126 final size:126
Alignment explanation
Indices: 60493288--60493568 Score: 384
Period size: 126 Copynumber: 2.2 Consensus size: 126
60493278 GGATTTTGTT
* * * *
60493288 TTTTCTCTACAGTAGTTTCAGAAAAATTAATTTTAAGAAGACGGTTCTAATAAGATAATGTCAAA
1 TTTT-TCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTAATAAAATAATGTCAAA
* *
60493353 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCAACGTGGACACTT
65 AATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCAACGTGGACACTC
* * * * *
60493415 TTTTTCTACAGTAGTTCCTGAGAAAATAATTTTTAGAAGACGGTTCTGAA-AAAATAGTTTTAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCT-AATAAAATAATGTCAAA
* * * * * *
60493479 AATGCTTTAAGCAAGATGCACTGTTAGCAAATTTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCAACGTGGACACTC
60493541 TTTTTCTACAGTAGTTCCTGAAAAAATA
1 TTTTTCTACAGTAGTTCCTGAAAAAATA
60493569 GTGTAAAAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
126 129 0.96
127 6 0.04
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTAATAAAATAATGTCAAAA
ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCAACGTGGACACTC
Found at i:60493613 original size:98 final size:98
Alignment explanation
Indices: 60493460--60493654 Score: 282
Period size: 98 Copynumber: 2.0 Consensus size: 98
60493450 GAAGACGGTT
* * ** * * * *
60493460 CTGAAAAAATAGTTTTAAAAATGCTTTAAGCAAGATGCACTGTTAGCAAATTTACTGAAAAAAGC
1 CTGAAAAAATAGTGTAAAAAACACTTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGC
* *
60493525 TCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
66 TCCCACATGGACACTCTTTTTCTACAGTAGTTC
*
60493558 CTGAAAAAATAGTGTAAAAAACACTTCAAGCACGATGCACTGTCAACAAAATTACTGAAAAAAGC
1 CTGAAAAAATAGTGTAAAAAACACTTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGC
*
60493623 TCTCACATGGACACTCTTTTTCTACAGTAGTT
66 TCCCACATGGACACTCTTTTTCTACAGTAGTT
60493655 ATTGTTTGGC
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (98 bp):
CTGAAAAAATAGTGTAAAAAACACTTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGC
TCCCACATGGACACTCTTTTTCTACAGTAGTTC
Found at i:60495650 original size:7 final size:7
Alignment explanation
Indices: 60495640--60495675 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
60495630 TTATATACAT
60495640 AATACTA
1 AATACTA
60495647 AATACTA
1 AATACTA
60495654 AATACTA
1 AATACTA
60495661 AATACTA
1 AATACTA
60495668 AATA-TA
1 AATACTA
60495674 AA
1 AA
60495676 ACGACTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Done.