Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 87 of 328
Found at i:24211805 original size:3 final size:3
Alignment explanation
Indices: 24211797--24211838 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
24211787 CAATTATAGT
24211797 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
24211839 GCTCCAGCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:24220793 original size:23 final size:21
Alignment explanation
Indices: 24220734--24220794 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
24220724 TTCAAATATT
*
24220734 TTTATATGTGAAATATTTTAA
1 TTTATATGTGAAATATATTAA
* * *
24220755 TTAATTATTTCAAATATCATTATA
1 TTTA-TATGTGAAATAT-ATTA-A
24220779 TTTATATGTGAAATAT
1 TTTATATGTGAAATAT
24220795 TTCAAATACA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 3 0.10
22 10 0.33
23 13 0.43
24 4 0.13
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTATATGTGAAATATATTAA
Found at i:24221403 original size:21 final size:21
Alignment explanation
Indices: 24221377--24221419 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
24221367 CAAACCTAAG
*
24221377 CCACACTTGAGACAATAAATA
1 CCACACCTGAGACAATAAATA
*
24221398 CCACACCTGAGATAATAAATA
1 CCACACCTGAGACAATAAATA
24221419 C
1 C
24221420 ATTGACCATC
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:0.47, C:0.26, G:0.09, T:0.19
Consensus pattern (21 bp):
CCACACCTGAGACAATAAATA
Found at i:24231602 original size:38 final size:36
Alignment explanation
Indices: 24231550--24231622 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
24231540 ATTCCAAAAA
*
24231550 TAATATTATTTTAATTA-CTTTAATATTAAATTTAATT
1 TAATATTATCTTAA-TAGCTTTAATATT-AATTTAATT
*
24231587 TAATACTTATCTTAATAGTTTTAATATTAATTTAAT
1 TAATA-TTATCTTAATAGCTTTAATATTAATTTAAT
24231623 AGATTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 15 0.47
38 17 0.53
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGCTTTAATATTAATTTAATT
Found at i:24231623 original size:20 final size:21
Alignment explanation
Indices: 24231584--24231632 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
24231574 ATTAAATTTA
24231584 ATTTAATACTTATCTTAATAG
1 ATTTAATACTTATCTTAATAG
*
24231605 TTTTAATA-TTAAT-TTAATAG
1 ATTTAATACTT-ATCTTAATAG
24231625 ATTTAATA
1 ATTTAATA
24231633 GTAAAGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTAATACTTATCTTAATAG
Found at i:24231672 original size:58 final size:58
Alignment explanation
Indices: 24231568--24231681 Score: 149
Period size: 58 Copynumber: 2.0 Consensus size: 58
24231558 TTTTAATTAC
* * * * *
24231568 TTTAATATTAAATTTAATTTAATACTTATCTTAATAGTTTTAATATTAATTTAATAGA
1 TTTAATAGTAAAGTTAATCTAATACTTATCTTAATAGTATTAATATTAATTCAATAGA
* *
24231626 TTTAATAGTAAAGTTAATCTAATATTTATCTTGATAAGTATT-ATATTAATTCAATA
1 TTTAATAGTAAAGTTAATCTAATACTTATCTTAAT-AGTATTAATATTAATTCAATA
24231682 TTAAAGTGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 43 0.90
59 5 0.10
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.49
Consensus pattern (58 bp):
TTTAATAGTAAAGTTAATCTAATACTTATCTTAATAGTATTAATATTAATTCAATAGA
Found at i:24232171 original size:21 final size:21
Alignment explanation
Indices: 24232145--24232191 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
24232135 CAACAATTAG
*
24232145 TATCAGAGTCAAATTGCGTTC
1 TATCAGAGCCAAATTGCGTTC
*
24232166 TATCAGAGCCAGATTGCGTTC
1 TATCAGAGCCAAATTGCGTTC
24232187 TATCA
1 TATCA
24232192 ATAAGTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (21 bp):
TATCAGAGCCAAATTGCGTTC
Found at i:24232329 original size:11 final size:11
Alignment explanation
Indices: 24232313--24232338 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24232303 GGATGTGATA
24232313 TTATATATTTG
1 TTATATATTTG
24232324 TTATATATTTG
1 TTATATATTTG
24232335 TTAT
1 TTAT
24232339 TTTTTCCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (11 bp):
TTATATATTTG
Found at i:24232657 original size:21 final size:20
Alignment explanation
Indices: 24232627--24232669 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
24232617 CTCATCTCAT
*
24232627 TTTATATATGTTTTATAATA
1 TTTATATATGTTATATAATA
*
24232647 TTTATATTATGTTATATTATA
1 TTTATA-TATGTTATATAATA
24232668 TT
1 TT
24232670 ATAAGTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTATATATGTTATATAATA
Found at i:24239412 original size:26 final size:26
Alignment explanation
Indices: 24239376--24239485 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
24239366 TGATACAAAT
24239376 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
24239402 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
24239428 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
24239454 TGATAATGGGTTAGGTGAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
24239480 TGATAA
1 TGATAA
24239486 GAATTTCATG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:24242329 original size:16 final size:17
Alignment explanation
Indices: 24242308--24242349 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
24242298 TTTCACTCTC
24242308 AATCAT-ATAAACAGTA
1 AATCATCATAAACAGTA
24242324 AATCATTCGATAAACAGTA
1 AATCA-TC-ATAAACAGTA
*
24242343 AGTCATC
1 AATCATC
24242350 CATTTAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 2 0.09
19 14 0.64
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.26
Consensus pattern (17 bp):
AATCATCATAAACAGTA
Found at i:24242359 original size:20 final size:20
Alignment explanation
Indices: 24242334--24242372 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24242324 AATCATTCGA
24242334 TAAACAGTAAGTCATCCATT
1 TAAACAGTAAGTCATCCATT
**
24242354 TAAACAGTACTTCATCCAT
1 TAAACAGTAAGTCATCCAT
24242373 ATAATAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (20 bp):
TAAACAGTAAGTCATCCATT
Found at i:24247120 original size:19 final size:18
Alignment explanation
Indices: 24247095--24247136 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
24247085 TAGTTTATTA
*
24247095 ATTAATTAATCCTAATTT
1 ATTAATTAATCATAATTT
24247113 ACTTAATTAATCATAATTT
1 A-TTAATTAATCATAATTT
24247132 ATTAA
1 ATTAA
24247137 CAATGGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTAATTAATCATAATTT
Found at i:24256838 original size:2 final size:2
Alignment explanation
Indices: 24256831--24256871 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
24256821 TAACTAGCTT
*
24256831 TA TA TA TA TA TA -A TA TA TA AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24256872 ACACCTTCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:24264318 original size:17 final size:17
Alignment explanation
Indices: 24264296--24264337 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
24264286 TACTATAATG
*
24264296 GCAAAAGAATGAAGAGT
1 GCAAAAGAACGAAGAGT
24264313 GCAAAAGAACGAAGAGT
1 GCAAAAGAACGAAGAGT
*
24264330 ACAAAAGA
1 GCAAAAGA
24264338 TGGAGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.57, C:0.10, G:0.26, T:0.07
Consensus pattern (17 bp):
GCAAAAGAACGAAGAGT
Found at i:24269125 original size:22 final size:22
Alignment explanation
Indices: 24269097--24269141 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
24269087 CCAATGATTG
24269097 ACATAATTTCACCGCTTAAAAA
1 ACATAATTTCACCGCTTAAAAA
*
24269119 ACATAATTTCACTGCTTAAAAA
1 ACATAATTTCACCGCTTAAAAA
24269141 A
1 A
24269142 ATCCTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (22 bp):
ACATAATTTCACCGCTTAAAAA
Found at i:24277620 original size:20 final size:19
Alignment explanation
Indices: 24277595--24277651 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
24277585 AATTAAATTA
24277595 AATTTAATATTAAGATAAT
1 AATTTAATATTAAGATAAT
24277614 CAATTTAATATTAA-ATTAAT
1 -AATTTAATATTAAGA-TAAT
* *
24277634 AAATTACTATTAAGATAA
1 AATTTAATATTAAGATAA
24277652 GTATTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (19 bp):
AATTTAATATTAAGATAAT
Found at i:24277632 original size:11 final size:11
Alignment explanation
Indices: 24277584--24277693 Score: 65
Period size: 11 Copynumber: 10.1 Consensus size: 11
24277574 TCTTGTATAA
24277584 AAATTAA-ATT
1 AAATTAATATT
24277594 AAATTTAATATT
1 AAA-TTAATATT
*
24277606 AAGA-T-A-ATC
1 AA-ATTAATATT
*
24277615 AATTTAATATT
1 AAATTAATATT
24277626 AAATT-A-A-T
1 AAATTAATATT
*
24277634 AAATTACTATT
1 AAATTAATATT
24277645 AAGA-TAAGTATT
1 AA-ATTAA-TATT
24277657 AAATTAATATT
1 AAATTAATATT
24277668 AATATTAAACTATT
1 AA-ATT-AA-TATT
*
24277682 AAAATAATATT
1 AAATTAATATT
24277693 A
1 A
24277694 TTTTTGGAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 29
0.68 0.06 0.25
Matches are distributed among these distances:
8 6 0.08
9 6 0.08
10 7 0.09
11 28 0.36
12 20 0.26
13 5 0.06
14 6 0.08
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (11 bp):
AAATTAATATT
Found at i:24291764 original size:2 final size:2
Alignment explanation
Indices: 24291757--24291789 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24291747 GAGAATCAGC
24291757 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24291790 CTATCTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24297631 original size:43 final size:43
Alignment explanation
Indices: 24297584--24297709 Score: 173
Period size: 43 Copynumber: 2.9 Consensus size: 43
24297574 AATGTATTAG
*
24297584 CACTAAGTGTGCGATACAATTATAGTTTCGACTAATTAATTGA
1 CACTAAGTGTGCGATACAATTATAGCTTCGACTAATTAATTGA
* * * *
24297627 CACTAAGTGTGGGATACAATTATAGCCTCGGCTAATTAATTGG
1 CACTAAGTGTGCGATACAATTATAGCTTCGACTAATTAATTGA
* *
24297670 CACTAAGTGCGCGAAACAATTATAGCTTC-AGCTAATTAAT
1 CACTAAGTGTGCGATACAATTATAGCTTCGA-CTAATTAAT
24297710 CATCACTAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (43 bp):
CACTAAGTGTGCGATACAATTATAGCTTCGACTAATTAATTGA
Found at i:24300559 original size:17 final size:17
Alignment explanation
Indices: 24300537--24300569 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24300527 ATCGCGTCAG
*
24300537 CATATTTCATGTTTTAC
1 CATATTTCAAGTTTTAC
24300554 CATATTTCAAGTTTTA
1 CATATTTCAAGTTTTA
24300570 ACATCTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (17 bp):
CATATTTCAAGTTTTAC
Found at i:24303039 original size:16 final size:16
Alignment explanation
Indices: 24303020--24303050 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24303010 ATGAGTGTGT
24303020 AATAATATCATGTCTG
1 AATAATATCATGTCTG
24303036 AATAATATCATGTCT
1 AATAATATCATGTCT
24303051 TTTCCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (16 bp):
AATAATATCATGTCTG
Found at i:24320742 original size:43 final size:43
Alignment explanation
Indices: 24320568--24320740 Score: 131
Period size: 43 Copynumber: 4.0 Consensus size: 43
24320558 ACATAGGATT
* * * *
24320568 TCGATATTTGATTTCGTGTACGACCACGTTTGGGACGTTGGCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
* * * *
24320611 TCGAT-TTGAGATTTACATGTAAGACCATGTCTGGGACATCGGCA
1 TCGATATT-TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCA
** *** *
24320655 TCG-TATGCGATTTTGTGTAAGATCCTA--TCTTGGACAG-TGGCA
1 TCGATATTTGATTACATGTAAGA-CC-ACGTCTGGGAC-GTTGGCA
*
24320697 TTGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
24320740 T
1 T
24320741 TGTACAAGCT
Statistics
Matches: 97, Mismatches: 23, Indels: 20
0.69 0.16 0.14
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 39 0.40
44 30 0.31
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:24323693 original size:18 final size:19
Alignment explanation
Indices: 24323659--24323697 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
24323649 GATAAACTCA
*
24323659 TTATTATGTATGTAAGACT
1 TTATTATCTATGTAAGACT
24323678 TTATTATCTA-GTAAGACT
1 TTATTATCTATGTAAGACT
24323696 TT
1 TT
24323698 TCCTGTAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.49
Consensus pattern (19 bp):
TTATTATCTATGTAAGACT
Found at i:24328248 original size:44 final size:42
Alignment explanation
Indices: 24328225--24328327 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
24328215 ATCGATTTGA
**
24328225 GATTTACGTGTAAGACCATGTCTGATACATCAGCATCGTATTT
1 GATTT-CGTGTAAGACCATGTCTGGGACATCAGCATCGTATTT
* * *
24328268 GATTTCGTGTAAGACCCTGTCTGGGACAGT-GGCATCAATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACA-TCAGCATC-GTATTT
* *
24328311 GATTACATGTAAGACCA
1 GATTTCGTGTAAGACCA
24328328 CATTCGGGAC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACATCAGCATCGTATTT
Found at i:24328303 original size:42 final size:41
Alignment explanation
Indices: 24328177--24328327 Score: 115
Period size: 43 Copynumber: 3.5 Consensus size: 41
24328167 AGGATTCCGA
* * * * * *
24328177 TATTTGATTCCATATAAGACTACGTCTGGGACATTGGTATCG
1 TATTTGATTTCGTGTAAGACCATGTCTGGGACA-TGGCATCG
** *
24328219 -ATTTGAGATTTACGTGTAAGACCATGTCTGATACATCAGCATCG
1 TATTT--GATTT-CGTGTAAGACCATGTCTGGGACAT-GGCATCG
* *
24328263 TATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCAA
1 TATTTGATTTCGTGTAAGACCATGTCTGGGACA-TGGCATC-G
* *
24328306 TATTTGATTACATGTAAGACCA
1 TATTTGATTTCGTGTAAGACCA
24328328 CATTCGGGAC
Statistics
Matches: 85, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
41 4 0.05
42 25 0.29
43 30 0.35
44 22 0.26
45 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (41 bp):
TATTTGATTTCGTGTAAGACCATGTCTGGGACATGGCATCG
Found at i:24328337 original size:43 final size:43
Alignment explanation
Indices: 24328263--24328345 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 43
24328253 ATCAGCATCG
* *
24328263 TATTTGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCATCAA
1 TATTTGATTACATGTAAGACCCTGTCTGGGAC-GTTGGCATCAA
24328306 TATTTGATTACATGTAAGACCACAT-TC-GGGACGTTGGCAT
1 TATTTGATTACATGTAAGACC-C-TGTCTGGGACGTTGGCAT
24328346 TGTACGAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
42 1 0.03
43 30 0.86
44 3 0.09
45 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
TATTTGATTACATGTAAGACCCTGTCTGGGACGTTGGCATCAA
Found at i:24339644 original size:5 final size:5
Alignment explanation
Indices: 24339627--24339661 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
24339617 ATTTATTTAT
24339627 TATAA TAATAA TATAA TATAA TATAA TATAA TATA
1 TATAA T-ATAA TATAA TATAA TATAA TATAA TATA
24339662 TATTCTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:24344104 original size:49 final size:49
Alignment explanation
Indices: 24343982--24344104 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
24343972 AGAGCTAATA
* * ** * *
24343982 TAAGACCTGCCTAGGACATGGCATCGGCTTCAAGATATGCAAGTTAGTG
1 TAAGACCTGTCTGGGACATGGCATTAGCCTCAAGATATGCAAGTCAGTG
* *
24344031 TAAGACCTGTCTGGGACATGGCATTAGCCTCGATG-TATGGAAGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATTAGCCTC-AAGATATGCAAGTCAGTG
24344080 TAAGACCTGTCTGGGACATGGCATT
1 TAAGACCTGTCTGGGACATGGCATT
24344105 GACTTAGATG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
49 63 0.97
50 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATTAGCCTCAAGATATGCAAGTCAGTG
Found at i:24350513 original size:54 final size:54
Alignment explanation
Indices: 24350451--24350557 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
24350441 AACTTGAACA
*
24350451 GCTCAAGTTATCGATTGTGCTAAATTCGAGTATCCTAATACTTACCTTTGAGCT
1 GCTCAAGTTATCAATTGTGCTAAATTCGAGTATCCTAATACTTACCTTTGAGCT
* *
24350505 GCTCAAGTTATCAATTTTGCTAAATTTGAGTATCCTAATACTTACCTTTGAGC
1 GCTCAAGTTATCAATTGTGCTAAATTCGAGTATCCTAATACTTACCTTTGAGC
24350558 AGTTCACGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (54 bp):
GCTCAAGTTATCAATTGTGCTAAATTCGAGTATCCTAATACTTACCTTTGAGCT
Found at i:24353112 original size:25 final size:25
Alignment explanation
Indices: 24353060--24353112 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
24353050 ATAAAATAAC
* * * *
24353060 TTAAATACTAAAATGGATAGAAAAA
1 TTAAATACCAAAATGAAAACAAAAA
*
24353085 TTAAATACCAAAATGAAAACAAATA
1 TTAAATACCAAAATGAAAACAAAAA
24353110 TTA
1 TTA
24353113 TTCAATGGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (25 bp):
TTAAATACCAAAATGAAAACAAAAA
Found at i:24356019 original size:34 final size:34
Alignment explanation
Indices: 24355979--24356046 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
24355969 AGGAGGAAGT
24355979 TAGTTTCAAAGACTTTTTACATTCATAAAGGAGA
1 TAGTTTCAAAGACTTTTTACATTCATAAAGGAGA
24356013 TAGTTTCAAAGACTTTTTACATTCATAAAGGAGA
1 TAGTTTCAAAGACTTTTTACATTCATAAAGGAGA
24356047 AATCAACTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (34 bp):
TAGTTTCAAAGACTTTTTACATTCATAAAGGAGA
Found at i:24356820 original size:210 final size:210
Alignment explanation
Indices: 24356237--24356861 Score: 925
Period size: 212 Copynumber: 3.0 Consensus size: 210
24356227 ATGAAAAACT
*
24356237 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGATTGACTTGAGCCTGGGTA
1 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGA-TCACTTGAGCCTGGGTA
* * * *
24356302 ACATACCTCATACTGAATGAAATAAAGAAAA-AAATTTGAAAAAACCACATTCAATGGGAAATAA
65 ACATAGCTCATACCGAATGAAGTAATGAAAACAAA-TTGAAAAAACCACATTCAATGGGAAATAA
24356366 AGTACATGAAAGAATTGAAGATCATTCTTTTTGCAATC-TTGGATTCAACCCAAGCAGTGAAGCA
129 AGTACATGAAAGAATTGAAGATCATTCTTTTTGCAA-CATTGGATTCAACCCAAGCAGTGAAGCA
24356430 AACAAATAAAAGATTCACC
193 AACAAAT-AAAGATTCACC
* * *
24356449 TAGAAAGGTTTAGCATACCAGTGTTGGACAAAAGTCAGCATCCAAGAGTCACTTGAGCCCGGGTA
1 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGA-TCACTTGAGCCTGGGTA
* * *
24356514 ACATAGCTCATATCAAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAATGAA
65 ACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAATAAA
* * *
24356579 GTACATGAGAGAACTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGATGCAAA
130 GTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAA
*
24356644 CAAATAAAGATTCACTT
195 CAAATAAAGATTCAC-C
* * * * *
24356661 TA-AAAGGTTTAGCATATCAATGTTAGACAAATGTCAGAAACCAAGATCCAC-CGAGCCTGGGTA
1 TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGAT-CACTTGAGCCTGGGTA
* * *
24356724 ACATAGCTCATACCGAATGATGCAATGAAAACAAATTGAAAAAGCCACATTCAATGGGAAATAAA
65 ACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAATAAA
* * *
24356789 GTACATGAAAGGATTGAATATCATCCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAA
130 GTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAA
24356854 CAAATAAA
195 CAAATAAA
24356862 AGCTTCTCAT
Statistics
Matches: 373, Mismatches: 36, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
210 137 0.37
211 52 0.14
212 181 0.49
213 3 0.01
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (210 bp):
TAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGATCACTTGAGCCTGGGTAA
CATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAATAAAG
TACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAAAC
AAATAAAGATTCACC
Found at i:24360215 original size:43 final size:43
Alignment explanation
Indices: 24360152--24360236 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
24360142 TTACTAAAAT
* *
24360152 TAGGATTTAGTCTTAAAACTTTGCTTTAAATAATTAATTAAAC
1 TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAAC
*
24360195 TAGGATTTAGTCCTAGAACTTTGCTTTAAATAAATAATTAAA
1 TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAA
24360237 GTATTAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (43 bp):
TAGGATTTAGTCCTAAAACTTTGCTTTAAATAAATAATTAAAC
Found at i:24367930 original size:76 final size:76
Alignment explanation
Indices: 24367802--24367946 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 76
24367792 CACTCTCCCC
* * * *
24367802 TATCTTACATTATATATAGTATCTTTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
1 TATCTCACATTACATATAATATCTCTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
24367867 CAAACAACTAA
66 CAAACAACTAA
* * *
24367878 TATCTCACATTACATATAATATCTCTACATAAAAATCCCTAAATAATGAGTGTTTAAATACACCC
1 TATCTCACATTACATATAATATCTCTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
24367943 CAAA
66 CAAA
24367947 TGGCTAACGA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.30
Consensus pattern (76 bp):
TATCTCACATTACATATAATATCTCTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
CAAACAACTAA
Found at i:24368131 original size:18 final size:20
Alignment explanation
Indices: 24368110--24368149 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
24368100 ATTAATTACC
24368110 AAAAAT-AG-CTTAATGGAT
1 AAAAATAAGCCTTAATGGAT
*
24368128 AAAAATAAGCCTTATTGGAT
1 AAAAATAAGCCTTAATGGAT
24368148 AA
1 AA
24368150 GGCAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (20 bp):
AAAAATAAGCCTTAATGGAT
Found at i:24369895 original size:91 final size:90
Alignment explanation
Indices: 24369679--24369895 Score: 215
Period size: 89 Copynumber: 2.4 Consensus size: 90
24369669 ACATATCGGA
* * * * * * * *
24369679 TTGCTCATAAGAGTTTTCCAATTGATAACGCGCCAAATGCACATAGTGCAAAACTCGCAGGCTAA
1 TTGCTCATAAAAGCTTTCCAACTGATAACACGCCAGATGAACATAGTGCAAAACCCGCAGGCCAA
* *
24369744 ACATTTTCCCGGATAACATGCCAGT
66 ACATTCTCCCGGATAACACGCCAGT
* * * * *
24369769 TT-CTAATAAAAGCTTTCCAACCGATAATA-GACCAGATGAACATAGTGCAAAGCCCGTAGGCCA
1 TTGCTCATAAAAGCTTTCCAACTGATAACACG-CCAGATGAACATAGTGCAAAACCCGCAGGCCA
** * *
24369832 AATGTTCTCCTATGG-TAACACGCTAGT
65 AACATTCTCC--CGGATAACACGCCAGT
24369859 TTGCTCATAAAAGCTTTCCAACTGATAACACGCCAGA
1 TTGCTCATAAAAGCTTTCCAACTGATAACACGCCAGA
24369896 ATCTTTGAAG
Statistics
Matches: 100, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
88 1 0.01
89 53 0.53
90 14 0.14
91 31 0.31
92 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (90 bp):
TTGCTCATAAAAGCTTTCCAACTGATAACACGCCAGATGAACATAGTGCAAAACCCGCAGGCCAA
ACATTCTCCCGGATAACACGCCAGT
Found at i:24371923 original size:27 final size:27
Alignment explanation
Indices: 24371893--24371946 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
24371883 ATACGGAAGT
*
24371893 GTTCGACGATGAAATCGACAAGCGAAA
1 GTTCGACGATGAAATCAACAAGCGAAA
24371920 GTTCGACGATGAAATCAACAAGCGAAA
1 GTTCGACGATGAAATCAACAAGCGAAA
24371947 CTTTCCGATT
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:0.43, C:0.19, G:0.24, T:0.15
Consensus pattern (27 bp):
GTTCGACGATGAAATCAACAAGCGAAA
Found at i:24372143 original size:47 final size:47
Alignment explanation
Indices: 24372048--24372177 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 47
24372038 ATGCGAATAA
* * * ** *
24372048 TACCTTGATTTGGCTACGGCCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
* * *
24372095 TACCTTGATTTGGCTACGGGCCATGGTATAGGTGCTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
* *
24372142 TACCTTGATTTGCCTACAGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
24372178 ATCGATTGCG
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
Found at i:24383442 original size:7 final size:7
Alignment explanation
Indices: 24383432--24383638 Score: 63
Period size: 7 Copynumber: 28.3 Consensus size: 7
24383422 TTCTGTTTTT
*
24383432 TTATATG
1 TTATATA
24383439 TTATATA
1 TTATATA
24383446 TTATATA
1 TTATATA
* *
24383453 CTATTTATG
1 -T-TATATA
24383462 TTATTATA
1 TTA-TATA
*
24383470 TTTTATA
1 TTATATA
*
24383477 TGTAGAATA
1 T-TA-TATA
24383486 CTTATTATA
1 -TTA-TATA
24383495 TTAT-TA
1 TTATATA
*
24383501 TTATTTA
1 TTATATA
*
24383508 -TATATCCC
1 TTATAT--A
24383516 TTATTATA
1 TTA-TATA
24383524 TTATAT-
1 TTATATA
*
24383530 TCCATTATA
1 T-TA-TATA
*
24383539 TTCTAT-
1 TTATATA
24383545 TTATATA
1 TTATATA
*
24383552 -TATTTA
1 TTATATA
*
24383558 TTACATA
1 TTATATA
24383565 TTATAT-
1 TTATATA
24383571 TT-TACTA
1 TTATA-TA
24383578 -TATATCA
1 TTATAT-A
* *
24383585 TAATATT
1 TTATATA
*
24383592 TTTTATA
1 TTATATA
24383599 TTATTATA
1 TTA-TATA
24383607 TTATTATA
1 TTA-TATA
24383615 TTATATAA
1 TTATAT-A
24383623 TT-TATA
1 TTATATA
24383629 TTATTATA
1 TTA-TATA
24383637 TT
1 TT
24383639 TTTATTTGTA
Statistics
Matches: 148, Mismatches: 27, Indels: 49
0.66 0.12 0.22
Matches are distributed among these distances:
5 2 0.01
6 29 0.20
7 53 0.36
8 45 0.30
9 15 0.10
10 4 0.03
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (7 bp):
TTATATA
Found at i:24383570 original size:20 final size:19
Alignment explanation
Indices: 24383519--24383645 Score: 66
Period size: 17 Copynumber: 7.1 Consensus size: 19
24383509 ATATCCCTTA
24383519 TTATATTATAT-TCCATTATAT
1 TTATATTATATAT--ATT-TAT
24383540 TCTAT-TTATATATATTTA-
1 T-TATATTATATATATTTAT
*
24383558 TTACA-TAT-TATATTTTACT
1 TTATATTATATATA-TTTA-T
* *
24383577 ATATATCATA-ATATTT-T
1 TTATATTATATATATTTAT
24383594 TTATATTAT-TATA-TTA-
1 TTATATTATATATATTTAT
24383610 TTATATTATATA-ATTTAT
1 TTATATTATATATATTTAT
*
24383628 AT-TATTATAT-T-TTTAT
1 TTATATTATATATATTTAT
24383644 TT
1 TT
24383646 GTAAATTATG
Statistics
Matches: 84, Mismatches: 8, Indels: 33
0.67 0.06 0.26
Matches are distributed among these distances:
16 22 0.26
17 33 0.39
18 2 0.02
19 8 0.10
20 8 0.10
21 7 0.08
22 4 0.05
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATATTATATATATTTAT
Found at i:24383638 original size:5 final size:5
Alignment explanation
Indices: 24383488--24383632 Score: 65
Period size: 5 Copynumber: 29.2 Consensus size: 5
24383478 GTAGAATACT
** * *
24383488 TATTA TATTA TTATTA T-TTA TA-TA TCCCT- TATTA TATTA TATTC CATTA
1 TATTA TATTA -TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA TATTA
* * *
24383537 TATTC TATT- TATATA TATT- TATTACA TATTA TATTT TACTA TA-TA
1 TATTA TATTA TAT-TA TATTA TATT--A TATTA TATTA TATTA TATTA
* * *
24383582 TCATAA TATT- TTTTA TATTA T-TATA TTATTA TATTA TATAA T-TTA
1 T-ATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA TATTA TATTA
24383627 TATTA T
1 TATTA T
24383633 TATATTTTTA
Statistics
Matches: 106, Mismatches: 17, Indels: 34
0.68 0.11 0.22
Matches are distributed among these distances:
4 25 0.24
5 62 0.58
6 14 0.13
7 5 0.05
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:24384919 original size:8 final size:8
Alignment explanation
Indices: 24384906--24384944 Score: 78
Period size: 8 Copynumber: 4.9 Consensus size: 8
24384896 GGAGAAATTC
24384906 AAAAAATA
1 AAAAAATA
24384914 AAAAAATA
1 AAAAAATA
24384922 AAAAAATA
1 AAAAAATA
24384930 AAAAAATA
1 AAAAAATA
24384938 AAAAAAT
1 AAAAAAT
24384945 TAGATAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Found at i:24385055 original size:39 final size:39
Alignment explanation
Indices: 24385001--24385077 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
24384991 AGAATTTCTG
24385001 CTGAAATTCTATCACAAAATTGAAAAAAATAATACTCAA
1 CTGAAATTCTATCACAAAATTGAAAAAAATAATACTCAA
24385040 CTGAAATTCTATCACAAAATTGAAAAAAATAATACTCA
1 CTGAAATTCTATCACAAAATTGAAAAAAATAATACTCA
24385078 CAGTCGCGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (39 bp):
CTGAAATTCTATCACAAAATTGAAAAAAATAATACTCAA
Found at i:24391936 original size:28 final size:28
Alignment explanation
Indices: 24391903--24391959 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
24391893 GCTTCTTTAA
*
24391903 TAATTTAAGGAATTTACGCAATTGTTCT
1 TAATTTAAGGAATTTACGAAATTGTTCT
24391931 TAATTTAAGGAATTTACGAAATTGTTCT
1 TAATTTAAGGAATTTACGAAATTGTTCT
24391959 T
1 T
24391960 CTGTGCGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (28 bp):
TAATTTAAGGAATTTACGAAATTGTTCT
Found at i:24393525 original size:28 final size:29
Alignment explanation
Indices: 24393486--24393563 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 29
24393476 CAATCAAATA
* *
24393486 TGGCACTCAGTGTACGAAATATTGAG-AC
1 TGGCACTTAGTGTGCGAAATATTGAGAAC
*
24393514 TGGCACTTAGTGTGCGAGATATTGAGAAC
1 TGGCACTTAGTGTGCGAAATATTGAGAAC
* *
24393543 -GACACTTAGTGTGCAAAATAT
1 TGGCACTTAGTGTGCGAAATAT
24393564 CGAATGATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 41 0.95
29 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (29 bp):
TGGCACTTAGTGTGCGAAATATTGAGAAC
Found at i:24406760 original size:18 final size:17
Alignment explanation
Indices: 24406720--24406760 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
24406710 CATGCCCGTA
*
24406720 TGGCCTACACGCCTGTG
1 TGGCCTACACGCCAGTG
*
24406737 TGGCCTACACGCCCAGTT
1 TGGCCTACACG-CCAGTG
24406755 TGGCCT
1 TGGCCT
24406761 TGCCCGTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.12, C:0.37, G:0.27, T:0.24
Consensus pattern (17 bp):
TGGCCTACACGCCAGTG
Found at i:24412119 original size:37 final size:36
Alignment explanation
Indices: 24412069--24412155 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
24412059 TACGAAGTCT
24412069 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
24412105 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
24412142 TCACCCGGAACATA
1 T-ACCCGG-ACATA
24412156 TTTCCAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:24412295 original size:49 final size:49
Alignment explanation
Indices: 24412230--24412378 Score: 280
Period size: 49 Copynumber: 3.0 Consensus size: 49
24412220 ACATATATAG
* *
24412230 ATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
24412279 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
24412328 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
24412377 AT
1 AT
24412379 TATTATGTAC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 98 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:24415440 original size:12 final size:12
Alignment explanation
Indices: 24415423--24415456 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
24415413 TTTTCAAGAG
24415423 AAATAAAATAAA
1 AAATAAAATAAA
*
24415435 AAATAAAATAAC
1 AAATAAAATAAA
24415447 AAA-AAAATAA
1 AAATAAAATAA
24415457 TTATATACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:24423717 original size:21 final size:21
Alignment explanation
Indices: 24423679--24423723 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24423669 GTGAGGGTCT
*
24423679 ACACGCCCATGCGGAGGCCAC
1 ACACGCCCATGCGAAGGCCAC
* * *
24423700 ACACTCCCATGTGAAGGCCCC
1 ACACGCCCATGCGAAGGCCAC
24423721 ACA
1 ACA
24423724 TGACCGTGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.42, G:0.22, T:0.09
Consensus pattern (21 bp):
ACACGCCCATGCGAAGGCCAC
Found at i:24424440 original size:2 final size:2
Alignment explanation
Indices: 24424433--24424460 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24424423 AAATAATAAC
24424433 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
24424461 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:24425930 original size:13 final size:14
Alignment explanation
Indices: 24425895--24425942 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
24425885 ATTAGTAAAA
* *
24425895 AAGAATATATACAT
1 AAGAAAATATATAT
*
24425909 AATAAAATATATAT
1 AAGAAAATATATAT
24425923 AA-AAAATATATAT
1 AAGAAAATATATAT
24425936 AAGAAAA
1 AAGAAAA
24425943 ATAAATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 13 0.43
14 17 0.57
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (14 bp):
AAGAAAATATATAT
Found at i:24427831 original size:87 final size:88
Alignment explanation
Indices: 24427732--24428425 Score: 433
Period size: 87 Copynumber: 7.9 Consensus size: 88
24427722 CTGTGTTTTG
* * *
24427732 GATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTT-AGTA-AAATCATCT
1 GATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTGAGTATAAA-CATCT
24427795 GAAGGTTAGATCTGCTATGTATTC
65 GAAGGTTAGATCTGCTATGTATTC
* * * *
24427819 GATTTGTTCCTTGTAAACACAAGAATGTCAAATCATCTTGGATCTGC-TTCAATATAAACATCTA
1 GATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTGAGTATAAACATCTG
24427883 AAGGTTAGATCTGCTATGTA-TC
66 AAGGTTAGATCTGCTATGTATTC
* *** ** * * ** *** *
24427905 TGCTCTCCATCGAAATGGAGATTCAAG-AT--CTGTTC-TCTTGGATCTGCTTTG-GTGTGAGAA
1 -GAT-TTGTTC--CTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTGAGTAT-A-AA
* * * *
24427965 CATCTGAAAGTTAAATATGCTATGTCTTC
60 CATCTGAAGGTTAGATCTGCTATGTATTC
* *
24427994 GATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC-TTCAGTATAAACATCTG
1 GATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTGAGTATAAACATCTG
24428058 AAGGTTAGATCTGCTATGTA-TC
66 AAGGTTAGATCTGCTATGTATTC
* *** * *
24428080 ----TGCTCTCCGTCG-AAA-TGGAG-ATGCCAGATCTATTATCTTGGATCTGCTTTG-GTGTGA
1 GATTTG-T-TCC-TTGTAAACACAAGAATGCCA-A---ATCATCTTGGATCTGCTTTGAGTAT-A
* * * * *
24428137 GAACATCCGAAAGTCAAATCTGCTATGTCTTC
58 -AACATCTGAAGGTTAGATCTGCTATGTATTC
* *
24428169 GATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGTTCTG-TTTCAGTATAAACATCTG
1 GATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTGAGTATAAACATCTG
24428233 AAGGTTAGATCTGCTATGTA-TC
66 AAGGTTAGATCTGCTATGTATTC
* * * * *
24428255 ----TGCTCTCCGTCG-AAATA-GAG-ATGCCAGATCTGTTATCTTGGATCTGCTTTG-GTGTGA
1 GATTTG-T-TCC-TTGTAAACACAAGAATGCCAAATC----ATCTTGGATCTGCTTTGAGTAT-A
* * * * * *
24428312 GAACATCCGAAAGTCAAATCTGCTATGTCTTT
58 -AACATCTGAAGGTTAGATCTGCTATGTATTC
* *
24428344 TATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGC-TTCAGTATAAACA-CGT
1 GATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTGAGTATAAACATC-T
** *
24428407 GAAGGCCAGATCTGGTATG
65 GAAGGTTAGATCTGCTATG
24428426 CTTTGGTCTG
Statistics
Matches: 457, Mismatches: 96, Indels: 108
0.69 0.15 0.16
Matches are distributed among these distances:
82 19 0.04
83 6 0.01
84 13 0.03
85 12 0.03
86 57 0.12
87 155 0.34
88 90 0.20
89 54 0.12
90 12 0.03
91 13 0.03
92 7 0.02
93 19 0.04
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (88 bp):
GATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTTGAGTATAAACATCTG
AAGGTTAGATCTGCTATGTATTC
Found at i:24428007 original size:175 final size:175
Alignment explanation
Indices: 24427804--24428425 Score: 1039
Period size: 175 Copynumber: 3.6 Consensus size: 175
24427794 TGAAGGTTAG
* *
24427804 ATCTGCTATGTATTCGATTTGTTCCTTGTAAACACAAGAATGTCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* * * * *
24427869 AATATAAACATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATTCAAGAT
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
* * *
24427934 CTGTTCTCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTTAA
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
* *
24427979 ATATGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
24428044 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
*
24428109 CTATTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
* *
24428154 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGTTCTGTTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
*
24428219 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAGATGCCAGAT
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
24428284 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
**
24428329 ATCTGCTATGTCTTTTATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
** *
24428394 AGTATAAACA-CGTGAAGGCCAGATCTGGTATG
66 AGTATAAACATC-TGAAGGTTAGATCTGCTATG
24428426 CTTTGGTCTG
Statistics
Matches: 420, Mismatches: 26, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
174 1 0.00
175 419 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (175 bp):
ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
Found at i:24428162 original size:88 final size:87
Alignment explanation
Indices: 24427875--24428339 Score: 316
Period size: 88 Copynumber: 5.3 Consensus size: 87
24427865 CTTCAATATA
* * * * *
24427875 AACATCT-AAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATTCAAGATCTGTT
1 AACATCTGAAA-GTTAAATCTGCTATGTATCTGCTCTCC-TCGAAATCGAGATGCCAGATCTATT
*
24427939 CTCTTGGATCTGCTTTGGTGTGAG
64 ATCTTGGATCTGCTTTGGTGTGAG
* * * * * *
24427963 AACATCTGAAAGTTAAATATGCTATGTCT-TCGATTTGCTCCTTGTAAACACAAGAATGCCA-A-
1 AACATCTGAAAGTTAAATCTGCTATGTATCT-G--CT-CTCCTCG-AAA-TCGAG-ATGCCAGAT
* ** *
24428025 --ATCATCTTGGATCTGCTTCAGTAT-A-
59 CTATTATCTTGGATCTGCTTTGGTGTGAG
* * *
24428050 AACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTATTA
1 AACATCTGAAAGTTAAATCTGCTATGTATCTGCTCTCC-TCGAAATCGAGATGCCAGATCTATTA
24428115 TCTTGGATCTGCTTTGGTGTGAG
65 TCTTGGATCTGCTTTGGTGTGAG
* * * * * *
24428138 AACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTG-T-TCCTTGTAAACACAAGAATGCCA-A
1 AACATCTGAAAGTTAAATCTGCTATG---T--ATCTGCTCTCCTCG-AAA-TCGAG-ATGCCAGA
* * * *
24428200 ---ATCATCTTGGTTCTG-TTTCAGTAT-A-
58 TCTATTATCTTGGATCTGCTTT-GGTGTGAG
* * * *
24428225 AACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAGATGCCAGATCTGTTA
1 AACATCTGAAAGTTAAATCTGCTATGTATCTGCTCTCC-TCGAAATCGAGATGCCAGATCTATTA
24428290 TCTTGGATCTGCTTTGGTGTGAG
65 TCTTGGATCTGCTTTGGTGTGAG
* *
24428313 AACATCCGAAAGTCAAATCTGCTATGT
1 AACATCTGAAAGTTAAATCTGCTATGT
24428340 CTTTTATTTG
Statistics
Matches: 282, Mismatches: 60, Indels: 70
0.68 0.15 0.17
Matches are distributed among these distances:
82 16 0.06
83 7 0.02
84 14 0.05
85 5 0.02
86 35 0.12
87 54 0.19
88 74 0.26
89 37 0.13
90 5 0.02
91 14 0.05
92 7 0.02
93 14 0.05
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (87 bp):
AACATCTGAAAGTTAAATCTGCTATGTATCTGCTCTCCTCGAAATCGAGATGCCAGATCTATTAT
CTTGGATCTGCTTTGGTGTGAG
Found at i:24440722 original size:12 final size:12
Alignment explanation
Indices: 24440705--24440729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24440695 TATACATAAT
24440705 AAAATATATATA
1 AAAATATATATA
24440717 AAAATATATATA
1 AAAATATATATA
24440729 A
1 A
24440730 GAAAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATATATATA
Found at i:24446242 original size:25 final size:26
Alignment explanation
Indices: 24446189--24446294 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 26
24446179 TGAAATGCCC
*
24446189 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
24446215 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
24446240 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
24446266 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24446291 ATCA
1 ATCA
24446295 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
25 46 0.61
26 30 0.39
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24446265 original size:51 final size:51
Alignment explanation
Indices: 24446189--24446294 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
24446179 TGAAATGCCC
24446189 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCATT
* *
24446240 ATCATGGAATATTTACCTAATCCATTATCATGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAACATTTACCTAACCCATT
24446291 ATCA
1 ATCA
24446295 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 14 0.27
51 38 0.73
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (51 bp):
ATCATGGAACATTTACCTAAACCATTATCATGAACATTTACCTAACCCATT
Found at i:24450743 original size:26 final size:26
Alignment explanation
Indices: 24450713--24450765 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
24450703 TCCAGAAAGA
24450713 AAACTTACTGAGTGTTTTAAAAGATG
1 AAACTTACTGAGTGTTTTAAAAGATG
24450739 AAACTTACTGAGTGTTTTAAAAGATG
1 AAACTTACTGAGTGTTTTAAAAGATG
24450765 A
1 A
24450766 TTTCATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.34
Consensus pattern (26 bp):
AAACTTACTGAGTGTTTTAAAAGATG
Found at i:24453318 original size:26 final size:26
Alignment explanation
Indices: 24453282--24453390 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
24453272 ATGAAATGCC
*
24453282 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
24453308 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* * *
24453334 TATCATGTAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
24453360 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
24453386 TATCA
1 TATCA
24453391 ATTTGTATTA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:24456838 original size:2 final size:2
Alignment explanation
Indices: 24456833--24456895 Score: 65
Period size: 2 Copynumber: 32.0 Consensus size: 2
24456823 AGAAATTTTT
* * * * * *
24456833 TA TA TA GA TA TA GA TA TA GA TA TA CA AA TA CA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24456874 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
24456896 AAAGAAACTA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (2 bp):
TA
Found at i:24463025 original size:47 final size:49
Alignment explanation
Indices: 24462905--24463083 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 49
24462895 TGTAACCCGC
* * *
24462905 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
*
24462951 CCAT-AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * *
24463000 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
24463043 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
24463084 CAAATATCCC
Statistics
Matches: 114, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 32 0.28
46 33 0.29
47 31 0.27
48 3 0.03
49 4 0.04
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:24463079 original size:93 final size:92
Alignment explanation
Indices: 24462913--24463083 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 92
24462903 GCCCATAAGT
* *
24462913 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
24462978 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
24463005 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
24463070 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
24463084 CAAATATCCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 38 0.51
93 36 0.49
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24463098 original size:46 final size:46
Alignment explanation
Indices: 24462955--24463098 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 46
24462945 TCGCATCCAT
* * *
24462955 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * *
24463003 A-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
24463048 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
24463094 AGTGA
1 AGTGA
24463099 CATGTCACTC
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 34 0.44
47 29 0.38
48 5 0.06
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:24465580 original size:30 final size:30
Alignment explanation
Indices: 24465536--24465624 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
24465526 CAAAGATAAC
24465536 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
24465565 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
24465595 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
24465625 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:24465584 original size:15 final size:15
Alignment explanation
Indices: 24465536--24465615 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
24465526 CAAAGATAAC
*
24465536 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
24465550 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
24465565 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
24465580 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
24465595 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
24465610 AAGAAA
1 AAGAAA
24465616 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:24465624 original size:15 final size:15
Alignment explanation
Indices: 24465547--24465624 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
24465537 AGAAAACCGA
24465547 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
24465562 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
24465576 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
24465591 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
24465607 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
24465622 ATA
1 ATA
24465625 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:24468592 original size:45 final size:45
Alignment explanation
Indices: 24468523--24468697 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 45
24468513 TGTAACCCGC
24468523 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGGTT-GCAT
* * *
24468568 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G----GTTGCAT
* * **
24468618 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GGTTGCAT
*
24468661 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
24468698 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 17
0.78 0.09 0.12
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 36 0.33
46 28 0.26
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGGTTGCAT
Found at i:24468689 original size:93 final size:92
Alignment explanation
Indices: 24468531--24468701 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
24468521 GCCCATAAGT
** *
24468531 GAACTCGGACTCAACTCAACGAGCTCGGGGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
24468596 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
24468623 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24468688 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
24468702 CAAATATCCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 28 0.38
93 46 0.62
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24468716 original size:46 final size:46
Alignment explanation
Indices: 24468528--24468716 Score: 131
Period size: 46 Copynumber: 4.1 Consensus size: 46
24468518 CCCGCCCATA
* * * * ** *
24468528 AGTGAACTCGGACTCAACTCAACGAGCTCGGGGTTCGCATCCAT--G
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCCCATATATCCC
* * *
24468573 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * * *
24468621 A-CGAACTCGGACTCAACTCAACGAGCTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
24468666 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
24468712 AGTGA
1 AGTGA
24468717 CATGTCACTC
Statistics
Matches: 112, Mismatches: 19, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
41 1 0.01
43 4 0.04
44 5 0.04
45 29 0.26
46 37 0.33
47 28 0.25
48 5 0.04
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:24484876 original size:13 final size:13
Alignment explanation
Indices: 24484858--24484883 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24484848 CAGGACTCTG
24484858 ATTATCTGTATCT
1 ATTATCTGTATCT
24484871 ATTATCTGTATCT
1 ATTATCTGTATCT
24484884 GAGTAGGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
ATTATCTGTATCT
Found at i:24486554 original size:21 final size:21
Alignment explanation
Indices: 24486530--24486578 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
24486520 GGAGCATAAA
24486530 ATTCATCATTTTGCATTGATT
1 ATTCATCATTTTGCATTGATT
24486551 ATTCATCATTTTGCATTGATT
1 ATTCATCATTTTGCATTGATT
*
24486572 AGTCATC
1 ATTCATC
24486579 CAAAAATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.49
Consensus pattern (21 bp):
ATTCATCATTTTGCATTGATT
Found at i:24488650 original size:20 final size:20
Alignment explanation
Indices: 24488625--24488671 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
24488615 TTTATAATAT
* *
24488625 TTCATTGATTTTGCCAGTTA
1 TTCATTGATTTGGCCAATTA
24488645 TTCATTGATTTGGCCAATTA
1 TTCATTGATTTGGCCAATTA
*
24488665 GTCATTG
1 TTCATTG
24488672 TATGAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (20 bp):
TTCATTGATTTGGCCAATTA
Found at i:24491792 original size:37 final size:37
Alignment explanation
Indices: 24491742--24491818 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
24491732 GATACCAAAG
24491742 TTTATTTTTATTTTTATTTTAATTTTCTTCAAAAGCT
1 TTTATTTTTATTTTTATTTTAATTTTCTTCAAAAGCT
24491779 TTTATTTTTATTTTTATTTTAATTTTCTTCAAAAGCT
1 TTTATTTTTATTTTTATTTTAATTTTCTTCAAAAGCT
24491816 TTT
1 TTT
24491819 TTTGTTTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.66
Consensus pattern (37 bp):
TTTATTTTTATTTTTATTTTAATTTTCTTCAAAAGCT
Found at i:24495456 original size:27 final size:27
Alignment explanation
Indices: 24495426--24495479 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
24495416 ATATATAATT
24495426 ATTA-TAAAATAGTTAAATTGTACTTAA
1 ATTATTAAAAT-GTTAAATTGTACTTAA
* * *
24495453 ATTATTAACATGTTTAATTTTACTTAA
1 ATTATTAAAATGTTAAATTGTACTTAA
24495480 TTTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (27 bp):
ATTATTAAAATGTTAAATTGTACTTAA
Found at i:24501245 original size:26 final size:26
Alignment explanation
Indices: 24501186--24501320 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
24501176 TGATACAAAT
24501186 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
24501211 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
24501237 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
24501263 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
24501289 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
24501315 TGATAA
1 TGATAA
24501321 GAATTTCATG
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 23 0.22
26 83 0.78
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:24507435 original size:2 final size:2
Alignment explanation
Indices: 24507430--24507468 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
24507420 CTTAAAAAAA
* *
24507430 AT AT AT AT AT AT AT AT AC AT AT AT AT AC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24507469 CAGAGCGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:24513707 original size:23 final size:24
Alignment explanation
Indices: 24513681--24513727 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
24513671 ATGATTTATA
*
24513681 CTATGA-TTAATTGTTTTAAAATG
1 CTATGAGTTAATGGTTTTAAAATG
24513704 CTATGATGTTAATGGTTTTAAAAT
1 CTATGA-GTTAATGGTTTTAAAAT
24513728 TGTATGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
25 15 0.71
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
CTATGAGTTAATGGTTTTAAAATG
Found at i:24514672 original size:16 final size:16
Alignment explanation
Indices: 24514651--24514691 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
24514641 GACACAAATT
24514651 AGAAAGAAAGAAAAAG
1 AGAAAGAAAGAAAAAG
**
24514667 AGAAAGAAAGAAAGGG
1 AGAAAGAAAGAAAAAG
24514683 AGAAAGAAA
1 AGAAAGAAA
24514692 AAAGCCACGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAGAAAAAG
Found at i:24529796 original size:5 final size:5
Alignment explanation
Indices: 24529786--24529843 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
24529776 ATACTAAATT
*
24529786 AATAA AATAA AA-ATA AATAA AATAAA AATAAA TAATAA AACAA AATAA
1 AATAA AATAA AATA-A AATAA AAT-AA AAT-AA -AATAA AATAA AATAA
*
24529834 AACAA AATAA
1 AATAA AATAA
24529844 TATCTTCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 1 0.02
5 30 0.67
6 11 0.24
7 3 0.07
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:24529799 original size:15 final size:15
Alignment explanation
Indices: 24529781--24529834 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
24529771 GCCAAATACT
*
24529781 AAATTAATAAAATAA
1 AAATAAATAAAATAA
24529796 AAATAAATAAAATAA
1 AAATAAATAAAATAA
*
24529811 AAATAAATAATAAAACA
1 AAATAAATAA-AATA-A
24529828 AAATAAA
1 AAATAAA
24529835 ACAAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 24 0.69
16 3 0.09
17 8 0.23
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAAATAAAATAA
Found at i:24536402 original size:16 final size:16
Alignment explanation
Indices: 24536381--24536413 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24536371 GAAACTGTAC
24536381 TCAATGCATTTTCTCT
1 TCAATGCATTTTCTCT
24536397 TCAATGCATTTTCTCT
1 TCAATGCATTTTCTCT
24536413 T
1 T
24536414 TAAGTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.52
Consensus pattern (16 bp):
TCAATGCATTTTCTCT
Found at i:24538258 original size:96 final size:96
Alignment explanation
Indices: 24538094--24538420 Score: 343
Period size: 96 Copynumber: 3.4 Consensus size: 96
24538084 AAGAGGGTGA
* * *
24538094 ATTGCCGATGCCATGTTCTAAACATGGTCTTACACTGGCTCAT-ATG-TCGAGGCCGATGCCATG
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATGAT-GTGGCCGATGCCATG
* *
24538157 TCCCAGACATGGTCTTACACTATCTCTCATCTC
64 TCCCAGACATGGTCTTACACTAGCTCTCATATC
*
24538190 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTC
* * *
24538255 CCAGACATGGTTTTACACTAGCGCACATATC
66 CCAGACATGGTCTTACACTAGCTCTCATATC
*** * * ** ** * * * *
24538286 AACACCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACAACATCGCGGATGTCATGTT
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTC
* * * *
24538351 CCAAACATGGTCTTACATTGGCTGTCATATC
66 CCAGACATGGTCTTACACTAGCTCTCATATC
* * * * *
24538382 GTAGCCGATGCCATGTCCCAAATATAGTATTACACTGGC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGC
24538421 ACACATATCA
Statistics
Matches: 190, Mismatches: 39, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
95 1 0.01
96 188 0.99
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTC
CCAGACATGGTCTTACACTAGCTCTCATATC
Found at i:24538359 original size:144 final size:144
Alignment explanation
Indices: 24538149--24538430 Score: 379
Period size: 144 Copynumber: 2.0 Consensus size: 144
24538139 GTCGAGGCCG
* * * * *
24538149 ATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATCTCATTGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCACATCGCCGATGCCATGTCCCAAACA
* * * * *
24538214 TGGTCTTACACTGGCTCTCATGAT-GTGGCCGATGCCATGTCCCAGACATGGTTTTACACTAGCG
66 TGGTCTTACACTGGCTCTCAT-ATCGTAGCCGATGCCATGTCCCAAACATAGTATTACACTAGCA
24538278 CACATATCAACACCA
130 CACATATCAACACCA
* * *
24538293 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CAACATCGCGGATGTCATGTTCCAAAC
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATC-ACATCGCCGATGCCATGTCCCAAAC
* * * *
24538357 ATGGTCTTACATTGGCTGTCATATCGTAGCCGATGCCATGTCCCAAATATAGTATTACACTGGCA
65 ATGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAAACATAGTATTACACTAGCA
24538422 CACATATCA
130 CACATATCA
24538431 CCCAAATGTC
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
143 3 0.03
144 116 0.97
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (144 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCACATCGCCGATGCCATGTCCCAAACA
TGGTCTTACACTGGCTCTCATATCGTAGCCGATGCCATGTCCCAAACATAGTATTACACTAGCAC
ACATATCAACACCA
Found at i:24538428 original size:48 final size:48
Alignment explanation
Indices: 24538097--24538429 Score: 296
Period size: 48 Copynumber: 6.9 Consensus size: 48
24538087 AGGGTGAATT
* * *
24538097 GCCGATGCCATGTTCTAAACATGGTCTTACACTGGCTCAT-ATGTCG-A
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATATCGTA
* ** * * *
24538144 GGCCGATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATCTCATT
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTA
* *
24538193 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ATCGTA
* * * * * *
24538241 GCCGATGCCATGTCCCAGACATGGTTTTACACTAGCGCACATATC-AA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTA
* * * * * * *
24538288 CACCAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACAACATC
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTA
* * * * *
24538337 GCGGATGTCATGTTCCAAACATGGTCTTACATTGGCTGTCATATCGTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTA
* * * * *
24538385 GCCGATGCCATGTCCCAAATATAGTATTACACTGGCACACATATC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
24538430 ACCCAAATGT
Statistics
Matches: 228, Mismatches: 51, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
47 3 0.01
48 224 0.98
49 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGTA
Found at i:24541722 original size:5 final size:5
Alignment explanation
Indices: 24541708--24541746 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
24541698 TCTTTTGATG
* *
24541708 GAAAA TAAAA GAAAAA GAAAA AAAAA GAAAA GAAAA GAA
1 GAAAA GAAAA G-AAAA GAAAA GAAAA GAAAA GAAAA GAA
24541747 GGAAAGCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (5 bp):
GAAAA
Found at i:24541733 original size:16 final size:15
Alignment explanation
Indices: 24541708--24541743 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
24541698 TCTTTTGATG
*
24541708 GAAAATAAAAGAAAAA
1 GAAAAAAAAAG-AAAA
24541724 GAAAAAAAAAGAAAA
1 GAAAAAAAAAGAAAA
24541739 GAAAA
1 GAAAA
24541744 GAAGGAAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
GAAAAAAAAAGAAAA
Found at i:24544702 original size:16 final size:16
Alignment explanation
Indices: 24544669--24544702 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24544659 TATTATTATG
*
24544669 AAATATTTTTTTTAAA
1 AAATATTTTTTATAAA
24544685 AAATATTTTTATATAAA
1 AAATATTTTT-TATAAA
24544702 A
1 A
24544703 TCAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATATTTTTTATAAA
Found at i:24545035 original size:22 final size:22
Alignment explanation
Indices: 24544991--24545035 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24544981 TATTATTTAA
*
24544991 ATTTAATTAATTTTTTTAAAAT
1 ATTTAATTAATTTTTTAAAAAT
*
24545013 ATTTTATTAA-TTTTTAAATAAT
1 ATTTAATTAATTTTTTAAA-AAT
24545035 A
1 A
24545036 AATGAGCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTAATTAATTTTTTAAAAAT
Found at i:24548218 original size:18 final size:19
Alignment explanation
Indices: 24548197--24548235 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
24548187 CTAAAAAATT
24548197 AAATGAAATGA-AAATAAA
1 AAATGAAATGAGAAATAAA
* *
24548215 AAATTAAATGAGTAATAAA
1 AAATGAAATGAGAAATAAA
24548234 AA
1 AA
24548236 CATAGCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (19 bp):
AAATGAAATGAGAAATAAA
Found at i:24557253 original size:92 final size:92
Alignment explanation
Indices: 24557096--24557280 Score: 361
Period size: 92 Copynumber: 2.0 Consensus size: 92
24557086 ATGAACGCCA
*
24557096 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTTGGAATTATTTCATGGG
1 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
24557161 AGTTAGTTTGAAAGTGGTAATTTATGG
66 AGTTAGTTTGAAAGTGGTAATTTATGG
24557188 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
1 TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
24557253 AGTTAGTTTGAAAGTGGTAATTTATGG
66 AGTTAGTTTGAAAGTGGTAATTTATGG
24557280 T
1 T
24557281 GAATAGCTAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (92 bp):
TATTATATATTTGAATCACATTTTATGTTACTAATCCAATTATTTTCTGGGAATTATTTCATGGG
AGTTAGTTTGAAAGTGGTAATTTATGG
Found at i:24560722 original size:60 final size:60
Alignment explanation
Indices: 24560609--24560783 Score: 169
Period size: 60 Copynumber: 2.9 Consensus size: 60
24560599 TCAAGCTTTA
* * *
24560609 CTGGGCC-TAAGCCCTATTTAGAAATCCGAGTTA-ACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTA-TTACAAAT-CGAGATATACTGGGCC-TAGCCCATATCAATATCAAT
* *
24560671 CTGGGCCATAGCCC-CTTACAATATC-AGAGTATACTGGGCCTAGCCCATATCAGTATCAAT
1 CTGGGCCATAGCCCTATTACAA-ATCGAGA-TATACTGGGCCTAGCCCATATCAATATCAAT
*** * * *
24560731 CTGGGTGGTAGCCCTATTACAAGTCGAGATATATTGGGCCTTGCCCATATCAA
1 CTGGGCCATAGCCCTATTACAAATCGAGATATACTGGGCCTAGCCCATATCAA
24560784 CACAGTTGGC
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
59 2 0.02
60 60 0.64
61 19 0.20
62 12 0.13
63 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (60 bp):
CTGGGCCATAGCCCTATTACAAATCGAGATATACTGGGCCTAGCCCATATCAATATCAAT
Found at i:24561128 original size:26 final size:27
Alignment explanation
Indices: 24561099--24561162 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
24561089 CAAAATTAAC
*
24561099 CCTAGGGGTATAACGGTCATTTT-ACA
1 CCTAGGGGTATAACGGTAATTTTCACA
* * *
24561125 CCTAGGGGTAAAATGGTAATTTTCATA
1 CCTAGGGGTATAACGGTAATTTTCACA
*
24561152 CTTAGGGGTAT
1 CCTAGGGGTAT
24561163 TTTAGTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (27 bp):
CCTAGGGGTATAACGGTAATTTTCACA
Found at i:24562114 original size:22 final size:22
Alignment explanation
Indices: 24562086--24562148 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
24562076 TATGAGGGAA
24562086 AAAAGAAAAGATGAAAGAAAAG
1 AAAAGAAAAGATGAAAGAAAAG
* *
24562108 AAAAGAAAATATGAATG-AAAG
1 AAAAGAAAAGATGAAAGAAAAG
24562129 AGAAAGAAAAGA--AAAGAAAA
1 A-AAAGAAAAGATGAAAGAAAA
24562149 TATGAATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.09
21 8 0.23
22 24 0.69
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (22 bp):
AAAAGAAAAGATGAAAGAAAAG
Found at i:24562136 original size:4 final size:5
Alignment explanation
Indices: 24562086--24562148 Score: 56
Period size: 5 Copynumber: 11.8 Consensus size: 5
24562076 TATGAGGGAA
* *
24562086 AAAAG AAAAG ATGAAAG AAAAG AAAAG AAAAT ATGAATG -AAAG AGAAAG
1 AAAAG AAAAG A--AAAG AAAAG AAAAG AAAAG A--AAAG AAAAG A-AAAG
24562135 AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAA
24562149 TATGAATGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
4 3 0.06
5 33 0.69
6 5 0.10
7 7 0.15
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (5 bp):
AAAAG
Found at i:24562138 original size:32 final size:32
Alignment explanation
Indices: 24562092--24562163 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
24562082 GGAAAAAAGA
24562092 AAAGATGAAAGAAAAGAAAAGAAAATATGAATG
1 AAAGA-GAAAGAAAAGAAAAGAAAATATGAATG
24562125 AAAGAGAAAGAAAAGAAAAGAAAATATGAATG
1 AAAGAGAAAGAAAAGAAAAGAAAATATGAATG
24562157 AAAGAGA
1 AAAGAGA
24562164 GGGGAGAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
32 34 0.87
33 5 0.13
ACGTcount: A:0.68, C:0.00, G:0.22, T:0.10
Consensus pattern (32 bp):
AAAGAGAAAGAAAAGAAAAGAAAATATGAATG
Found at i:24562160 original size:16 final size:16
Alignment explanation
Indices: 24562109--24562161 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
24562099 AAAGAAAAGA
24562109 AAAGAAAATATGAATG
1 AAAGAAAATATGAATG
* *
24562125 AAAGAGAA-A-GAAAAG
1 AAAGAAAATATG-AATG
24562140 AAAAGAAAATATGAATG
1 -AAAGAAAATATGAATG
24562157 AAAGA
1 AAAGA
24562162 GAGGGGAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 1 0.03
15 4 0.14
16 19 0.66
17 4 0.14
18 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (16 bp):
AAAGAAAATATGAATG
Found at i:24565897 original size:60 final size:60
Alignment explanation
Indices: 24565826--24565958 Score: 171
Period size: 60 Copynumber: 2.2 Consensus size: 60
24565816 AACTGAACCT
* *
24565826 TAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTACAATATC-AGAGTATACTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAA-ATCGAGA-TATACTGGGCC
* * * *
24565886 TAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATATTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAATCGAGATATACTGGGCC
*
24565946 TTGCCCATATCAA
1 TAGCCCATATCAA
24565959 CACAGTTGGC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 54 0.86
61 9 0.14
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (60 bp):
TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAATCGAGATATACTGGGCC
Found at i:24567182 original size:16 final size:16
Alignment explanation
Indices: 24567161--24567202 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
24567151 AAGAGCAGAG
24567161 ATTCAGCTATGATAAA
1 ATTCAGCTATGATAAA
24567177 ATTCAGCTATGATAAA
1 ATTCAGCTATGATAAA
24567193 ATTCAGCTAT
1 ATTCAGCTAT
24567203 TTGAGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (16 bp):
ATTCAGCTATGATAAA
Found at i:24567309 original size:22 final size:22
Alignment explanation
Indices: 24567283--24567324 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24567273 TATAAGGGAA
24567283 AAAAGAAAAGATGAAAGAAAAG
1 AAAAGAAAAGATGAAAGAAAAG
* *
24567305 AAAAGAAAATATGAATGAAA
1 AAAAGAAAAGATGAAAGAAA
24567325 GAGAGGGGAG
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:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (22 bp):
AAAAGAAAAGATGAAAGAAAAG
Found at i:24574346 original size:16 final size:16
Alignment explanation
Indices: 24574325--24574358 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24574315 GGTAACTTAG
24574325 TTTTAGTTTTAATAAC
1 TTTTAGTTTTAATAAC
24574341 TTTTAGTTTTAATAAC
1 TTTTAGTTTTAATAAC
24574357 TT
1 TT
24574359 CTTACGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTAGTTTTAATAAC
Found at i:24574383 original size:29 final size:29
Alignment explanation
Indices: 24574341--24574397 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
24574331 TTTTAATAAC
* *
24574341 TTTTAGTTTTAATAACTTCTTACGTTTAG
1 TTTTAGTTTCAATAACTTCTTACATTTAG
24574370 TTTTAGTTTCAATAACTTCTTACATTTA
1 TTTTAGTTTCAATAACTTCTTACATTTA
24574398 ATTCTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.54
Consensus pattern (29 bp):
TTTTAGTTTCAATAACTTCTTACATTTAG
Found at i:24581959 original size:27 final size:27
Alignment explanation
Indices: 24581900--24581960 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
24581890 AGCGAGTATG
24581900 GAATTAAGAAATAAAAATATTGATAATT
1 GAATT-AGAAATAAAAATATTGATAATT
* * *
24581928 AAATTAGAAATAAAATTATTTAGTAA-T
1 GAATTAGAAATAAAAATATTGA-TAATT
24581955 GAATTA
1 GAATTA
24581961 AATAGAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (27 bp):
GAATTAGAAATAAAAATATTGATAATT
Found at i:24583430 original size:21 final size:20
Alignment explanation
Indices: 24583406--24583444 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24583396 GAGTATTTTG
24583406 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
24583427 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
24583445 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:24586314 original size:14 final size:14
Alignment explanation
Indices: 24586297--24586327 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24586287 ACATATAATT
24586297 TGGCCCAATCGGAA
1 TGGCCCAATCGGAA
24586311 TGGCCCAATCGGAA
1 TGGCCCAATCGGAA
24586325 TGG
1 TGG
24586328 TCCATTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.16
Consensus pattern (14 bp):
TGGCCCAATCGGAA
Found at i:24586418 original size:19 final size:19
Alignment explanation
Indices: 24586394--24586491 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
24586384 AATCTTTAAA
24586394 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24586413 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24586432 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24586449 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24586468 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
24586489 GAT
1 GAT
24586492 CTTGTAATAT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24586424 original size:36 final size:35
Alignment explanation
Indices: 24586384--24586491 Score: 126
Period size: 36 Copynumber: 2.9 Consensus size: 35
24586374 ATGGAAATAT
24586384 AATCTTTAAAGATATGCAATCTTAGATATGATATGC
1 AATC-TTAAAGATATGCAATCTTAGATATGATATGC
* * *
24586420 AATCTTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTAAAGAT-ATGCAATCTTAGATATGATATGC
24586456 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTTA-A-A-GATATGCAATCTT--AGATATGAT
24586492 CTTGTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
35 6 0.10
36 33 0.55
38 10 0.17
39 2 0.03
40 9 0.15
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (35 bp):
AATCTTAAAGATATGCAATCTTAGATATGATATGC
Found at i:24587030 original size:26 final size:25
Alignment explanation
Indices: 24587000--24587049 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
24586990 GTGCATAGTT
*
24587000 TTATTTTTTTTATATGCTATGTTTAA
1 TTATTTCTTTTATATGCTAT-TTTAA
*
24587026 TTATTTCTTTTATGTGCTATTTTA
1 TTATTTCTTTTATATGCTATTTTA
24587050 TGATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.66
Consensus pattern (25 bp):
TTATTTCTTTTATATGCTATTTTAA
Found at i:24589637 original size:523 final size:523
Alignment explanation
Indices: 24588653--24589702 Score: 2055
Period size: 523 Copynumber: 2.0 Consensus size: 523
24588643 CCTTGTCAGG
*
24588653 CTTGATGAATTAAATGTCATACTTGGGAAGCGTGTGATCATGTTTAGTATGTTAAAATTGATGCA
1 CTTGATGAATTAAATGTCATACTTGGGAAGCGTGTGATCATGTTTAGTATGTTAAAATTGATGAA
*
24588718 AATATATTTGGTAATAAGTTGGTATAATTTAGGTATGAAATTAGTTGCAAGTTAAATGCATTAAA
66 AATATATTTGGTAATAAGTTGGTATAATTTAGGTATGAAATTAGTTGCAAGATAAATGCATTAAA
24588783 ATGTTCATATTAAGTCCTTCTACGTTAGTGTCTCGAAACAACAAGATCATGTATCGAGACCATAA
131 ATGTTCATATTAAGTCCTTCTACGTTAGTGTCTCGAAACAACAAGATCATGTATCGAGACCATAA
24588848 GAAAATTTTTTACCATATGGCACACGTTATAGGCTTAGGTTTTGAGACTACATAAACAAGTCTCG
196 GAAAATTTTTTACCATATGGCACACGTTATAGGCTTAGGTTTTGAGACTACATAAACAAGTCTCG
24588913 AGCCAACATGGCTTAAGTCTCAAGACAGAGTGGTCTCTATTTCGAGACAAGAATACATTAAAGCT
261 AGCCAACATGGCTTAAGTCTCAAGACAGAGTGGTCTCTATTTCGAGACAAGAATACATTAAAGCT
24588978 AAATTAGAAAATGAGGGGAAAGGCGTCTTGAGACCAGTCTTGAGACATGAACCCTAATGTCTCGA
326 AAATTAGAAAATGAGGGGAAAGGCGTCTTGAGACCAGTCTTGAGACATGAACCCTAATGTCTCGA
*
24589043 GACAATACCACATCGAAGTAAATATAGTGAAACATGGGAAGCCTGTTTAAAGACATGAAATTTTC
391 GACAATACCACATCGAAGTAAATATAATGAAACATGGGAAGCCTGTTTAAAGACATGAAATTTTC
24589108 TATCTCGAGACATATTGTTGAATTATGGTATTTAGAATTTGGATCTAAATCCTAACTTCGTATTT
456 TATCTCGAGACATATTGTTGAATTATGGTATTTAGAATTTGGATCTAAATCCTAACTTCGTATTT
24589173 GAC
521 GAC
24589176 CTTGATGAATTAAATGTCATACTTGGGAAGCGTGTGATCATGTTTAGTATGTTAAAATTGATGAA
1 CTTGATGAATTAAATGTCATACTTGGGAAGCGTGTGATCATGTTTAGTATGTTAAAATTGATGAA
**
24589241 AATATATTTGGTAATAAGTTGGTATAATTTAGGTATGAAATTAGTTGCAAGATGCATGCATTAAA
66 AATATATTTGGTAATAAGTTGGTATAATTTAGGTATGAAATTAGTTGCAAGATAAATGCATTAAA
24589306 ATGTTCATATTAAGTCCTTCTACGTTAGTGTCTCGAAACAACAAGATCATGTATCGAGACCATAA
131 ATGTTCATATTAAGTCCTTCTACGTTAGTGTCTCGAAACAACAAGATCATGTATCGAGACCATAA
24589371 GAAAATTTTTTACCATATGGCACACGTTATAGGCTTAGGTTTTGAGACTACATAAACAAGTCTCG
196 GAAAATTTTTTACCATATGGCACACGTTATAGGCTTAGGTTTTGAGACTACATAAACAAGTCTCG
24589436 AGCCAACATGGCTTAAGTCTCAAGACAGAGTGGTCTCTATTTCGAGACAAGAATACATTAAAGCT
261 AGCCAACATGGCTTAAGTCTCAAGACAGAGTGGTCTCTATTTCGAGACAAGAATACATTAAAGCT
24589501 AAATTAGAAAATGAGGGGAAAGGCGTCTTGAGACCAGTCTTGAGACATGAACCCTAATGTCTCGA
326 AAATTAGAAAATGAGGGGAAAGGCGTCTTGAGACCAGTCTTGAGACATGAACCCTAATGTCTCGA
24589566 GACAATACCACATCGAAGTAAATATAATGAAACATGGGAAGCCTGTTTAAAGACATGAAATTTTC
391 GACAATACCACATCGAAGTAAATATAATGAAACATGGGAAGCCTGTTTAAAGACATGAAATTTTC
24589631 TATCTCGAGACATATTGTTGAATTATGGTATTTAGAATTTGGATCTAAATCCTAACTTCGTATTT
456 TATCTCGAGACATATTGTTGAATTATGGTATTTAGAATTTGGATCTAAATCCTAACTTCGTATTT
24589696 GAC
521 GAC
24589699 CTTG
1 CTTG
24589703 TACAACCCCT
Statistics
Matches: 522, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
523 522 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (523 bp):
CTTGATGAATTAAATGTCATACTTGGGAAGCGTGTGATCATGTTTAGTATGTTAAAATTGATGAA
AATATATTTGGTAATAAGTTGGTATAATTTAGGTATGAAATTAGTTGCAAGATAAATGCATTAAA
ATGTTCATATTAAGTCCTTCTACGTTAGTGTCTCGAAACAACAAGATCATGTATCGAGACCATAA
GAAAATTTTTTACCATATGGCACACGTTATAGGCTTAGGTTTTGAGACTACATAAACAAGTCTCG
AGCCAACATGGCTTAAGTCTCAAGACAGAGTGGTCTCTATTTCGAGACAAGAATACATTAAAGCT
AAATTAGAAAATGAGGGGAAAGGCGTCTTGAGACCAGTCTTGAGACATGAACCCTAATGTCTCGA
GACAATACCACATCGAAGTAAATATAATGAAACATGGGAAGCCTGTTTAAAGACATGAAATTTTC
TATCTCGAGACATATTGTTGAATTATGGTATTTAGAATTTGGATCTAAATCCTAACTTCGTATTT
GAC
Found at i:24594013 original size:19 final size:19
Alignment explanation
Indices: 24593991--24594033 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
24593981 TGAAGCTAAA
24593991 TTATTTAATCATTTTTATT
1 TTATTTAATCATTTTTATT
* *
24594010 TTATTTTATTATTTTTATT
1 TTATTTAATCATTTTTATT
24594029 TTATT
1 TTATT
24594034 CCTTTCTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTAATCATTTTTATT
Found at i:24595935 original size:21 final size:21
Alignment explanation
Indices: 24595896--24595935 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24595886 AATTCCGATT
*
24595896 TAAGTTTTATTCGATTTATTC
1 TAAGTTTTATTCGACTTATTC
24595917 TAAGTTTTATTTCG-CTTAT
1 TAAGTTTTA-TTCGACTTAT
24595936 ATATATACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (21 bp):
TAAGTTTTATTCGACTTATTC
Found at i:24602113 original size:16 final size:16
Alignment explanation
Indices: 24602092--24602129 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
24602082 ATTTGTCCTC
24602092 TTTTTTACTTTTTTTT
1 TTTTTTACTTTTTTTT
**
24602108 TTTTTTGGTTTTTTTT
1 TTTTTTACTTTTTTTT
24602124 TTTTTT
1 TTTTTT
24602130 TAATTCAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.03, C:0.03, G:0.05, T:0.89
Consensus pattern (16 bp):
TTTTTTACTTTTTTTT
Found at i:24608343 original size:18 final size:17
Alignment explanation
Indices: 24608316--24608350 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24608306 TATTATAATT
*
24608316 AAATAAAAATTCATTCA
1 AAATAAAAATTAATTCA
24608333 AAATGAAAAATTAATTCA
1 AAAT-AAAAATTAATTCA
24608351 GGTGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAAATTAATTCA
Found at i:24608515 original size:2 final size:2
Alignment explanation
Indices: 24608508--24608537 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24608498 GTTAAAAGTT
24608508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24608538 AATTAAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24608859 original size:17 final size:17
Alignment explanation
Indices: 24608833--24608868 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
24608823 ATTATTTTCC
*
24608833 TAATGGTTTGTAGTTAA
1 TAATGCTTTGTAGTTAA
24608850 TAATGCTTTGTAGTTAA
1 TAATGCTTTGTAGTTAA
24608867 TA
1 TA
24608869 TATAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (17 bp):
TAATGCTTTGTAGTTAA
Found at i:24609570 original size:23 final size:22
Alignment explanation
Indices: 24609522--24609580 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
24609512 CCAACCCAAA
24609522 TATATTATATTATAAAAATTAAT
1 TATATTA-ATTATAAAAATTAAT
* * *
24609545 TATATTAATTATATATATTTATT
1 TATATTAATTATA-AAAATTAAT
24609568 TATATTGAATTAT
1 TATATT-AATTAT
24609581 TAACCCAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.19
23 19 0.61
24 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TATATTAATTATAAAAATTAAT
Found at i:24609827 original size:20 final size:20
Alignment explanation
Indices: 24609791--24609828 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24609781 TTATAATTTT
**
24609791 TAAAAAATTTATTTTTTAAA
1 TAAAAAATTTAAATTTTAAA
24609811 TAAAAAATTTAAATTTTA
1 TAAAAAATTTAAATTTTA
24609829 GGCAAGCCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAAAATTTAAATTTTAAA
Found at i:24610592 original size:13 final size:13
Alignment explanation
Indices: 24610574--24610598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24610564 ATTAGCTTGA
24610574 ATGAAACATGTTC
1 ATGAAACATGTTC
24610587 ATGAAACATGTT
1 ATGAAACATGTT
24610599 TCTGGTTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGAAACATGTTC
Found at i:24612498 original size:29 final size:28
Alignment explanation
Indices: 24612437--24612509 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
24612427 AAGTATAAAA
*
24612437 ATAAAAAATTATTTAAAGTATTTAAAGT
1 ATAAAAAATTATTTAAAATATTTAAAGT
*
24612465 ATAAAAATATTTTTTAAAATATTTTAAA-T
1 ATAAAAA-ATTATTTAAAATA-TTTAAAGT
* *
24612494 TTAAAAAATTAATTAA
1 ATAAAAAATTATTTAA
24612510 TTACTAACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
28 14 0.37
29 18 0.47
30 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
ATAAAAAATTATTTAAAATATTTAAAGT
Done.