Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 46 of 62
Found at i:10223464 original size:13 final size:13
Alignment explanation
Indices: 10223446--10223479 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
10223436 TAAGATTTTC
*
10223446 TTTGAAAATCATT
1 TTTGAAAATCAAT
10223459 TTTG-AAATCAAT
1 TTTGAAAATCAAT
10223471 TTTGAAAAT
1 TTTGAAAAT
10223480 TACTCCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:10239340 original size:304 final size:308
Alignment explanation
Indices: 10238837--10239412 Score: 772
Period size: 304 Copynumber: 1.9 Consensus size: 308
10238827 CAACCAAATG
* *
10238837 CTCCTAAACCATCGTAGAATACATACGTACTTTCAATTTCTCTTTTTGATAATAAATTTTATAGT
1 CTCCTAAACCATCGTAGAATACATACGTACTTTCAATTCCTCTTTTTGATAATAAATTTTATACT
* * * **
10238902 ATTCACTTTAGTCCTCAATTTTTCATAATATTCTTTTTTTCAATTTATTCTTTATTTTATGTCCG
66 ATTCAATTTAGTCCTCAATTTTTCATAATATTC----TCTCAATTTATCCTTTATTTTAAATCCG
* *
10238967 TTTTTACCAAATTTGAACGATATGCTCATAGAAAAAAATATGATGCCTATGTAACTTCAATTTTT
127 TTTTTACCAAATTTGAACCATATGCTCATAGAAAAAAATATGATGCCTATGTAACTTCAATTCTT
* * *
10239032 AC-TTTTTACTAAAAATGTACTCTCTTTTTTTATTTAGTACATTAACATTACATTTTACTCAATT
192 ACTTTTTTACTAAAAATATACCCTC-TTTTTTATTTAATACATTAACATTACATTTTACTCAATT
10239096 TGGTCTTTTGAATATAATTGTTTACAAATTCTTTCTTTCCATCAATTCCTTGA
256 TGGTCTTTTGAATATAATTGTTTACAAATTCTTTCTTTCCATCAATTCCTTGA
* *
10239149 CTCCTAAACCATCGTAGAATACATATGTACTTT-AATTCCTCTTTTTGATAATAAATTTTTTACT
1 CTCCTAAACCATCGTAGAATACATACGTACTTTCAATTCCTCTTTTTGATAATAAATTTTATACT
* *
10239213 -TTTAATTTAGTCCCTCAATTTTTCATAA-ATTC-CTCATTTTATCCTTTATTTTAAAT-C-TAT
66 ATTCAATTTAGT-CCTCAATTTTTCATAATATTCTCTCAATTTATCCTTTATTTTAAATCCGT-T
* ** * * *
10239273 TTTACCAAATTTGAACCATATGCTCATATACCACAATA-GAATGTCTATGTAACTTCACTTCTTA
129 TTTACCAAATTTGAACCATATGCTCATAGAAAAAAATATG-ATGCCTATGTAACTTCAATTCTTA
* * * *
10239337 CTTTTTTTTACTAAAAATATACCCTCTTTTTTATTTAATCCCTTAACTTTGCATTTTACTCAATT
193 C--TTTTTTACTAAAAATATACCCTCTTTTTTATTTAATACATTAACATTACATTTTACTCAATT
10239402 TGGTCTTTTGA
256 TGGTCTTTTGA
10239413 CTACAATTTT
Statistics
Matches: 232, Mismatches: 26, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
303 2 0.01
304 57 0.25
305 19 0.08
306 45 0.19
307 20 0.09
310 13 0.06
311 44 0.19
312 32 0.14
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (308 bp):
CTCCTAAACCATCGTAGAATACATACGTACTTTCAATTCCTCTTTTTGATAATAAATTTTATACT
ATTCAATTTAGTCCTCAATTTTTCATAATATTCTCTCAATTTATCCTTTATTTTAAATCCGTTTT
TACCAAATTTGAACCATATGCTCATAGAAAAAAATATGATGCCTATGTAACTTCAATTCTTACTT
TTTTACTAAAAATATACCCTCTTTTTTATTTAATACATTAACATTACATTTTACTCAATTTGGTC
TTTTGAATATAATTGTTTACAAATTCTTTCTTTCCATCAATTCCTTGA
Found at i:10239902 original size:14 final size:14
Alignment explanation
Indices: 10239883--10239918 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
10239873 AATCGTCACT
10239883 AAAACTTGTCACGA
1 AAAACTTGTCACGA
*
10239897 AAAACTTGTCACGT
1 AAAACTTGTCACGA
10239911 AAAACTTG
1 AAAACTTG
10239919 AATCTCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (14 bp):
AAAACTTGTCACGA
Found at i:10248403 original size:61 final size:62
Alignment explanation
Indices: 10248338--10248463 Score: 159
Period size: 61 Copynumber: 2.0 Consensus size: 62
10248328 ATCGTTGCTG
* * * *
10248338 AAGTATTTTTGAAAACATCGAAGCTAAA-TTTGGTAGCGATACTCATGG-G-GTATCGATACCC
1 AAGTAATTTTCAAAACATCGAAAC-AAATTTTGGTAGCGATACTC-CGGTGAGTATCGATACCC
* *
10248399 AAGTAATTTTCAAAACATCGAAACAAATTTTGGTATCGATATTCCGGTGAGTATCGATACCC
1 AAGTAATTTTCAAAACATCGAAACAAATTTTGGTAGCGATACTCCGGTGAGTATCGATACCC
10248461 AAG
1 AAG
10248464 GGGTGAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
60 5 0.09
61 36 0.64
62 15 0.27
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (62 bp):
AAGTAATTTTCAAAACATCGAAACAAATTTTGGTAGCGATACTCCGGTGAGTATCGATACCC
Found at i:10254971 original size:20 final size:20
Alignment explanation
Indices: 10254946--10255015 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
10254936 TTAGTTTCCG
*
10254946 ATACACCCTGTAGTGTATCC
1 ATACACCCTGCAGTGTATCC
*
10254966 ATACACCCTGCCGTGTATCC
1 ATACACCCTGCAGTGTATCC
* * *
10254986 ATACACTCTACATTGTATCC
1 ATACACCCTGCAGTGTATCC
10255006 ATACACCCTG
1 ATACACCCTG
10255016 GCTGCAGCGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (20 bp):
ATACACCCTGCAGTGTATCC
Found at i:10255093 original size:21 final size:21
Alignment explanation
Indices: 10255055--10255095 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10255045 TTTGAATTTA
* **
10255055 ATGAAGGTGTACTGATACCCT
1 ATGAAGGGGTACCAATACCCT
10255076 ATGAAGGGGTACCAATACCC
1 ATGAAGGGGTACCAATACCC
10255096 CATGTTATGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (21 bp):
ATGAAGGGGTACCAATACCCT
Found at i:10257778 original size:16 final size:17
Alignment explanation
Indices: 10257756--10257807 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 17
10257746 GATACACCTG
10257756 CAGTGTATCCATACACT
1 CAGTGTATCCATACACT
*
10257773 -AGTGTATCGATACACTCT
1 CAGTGTATCCATACA--CT
10257791 GCAGTGTATCCATACAC
1 -CAGTGTATCCATACAC
10257808 CTTGGCTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 13 0.45
18 3 0.10
20 13 0.45
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (17 bp):
CAGTGTATCCATACACT
Found at i:10257798 original size:20 final size:19
Alignment explanation
Indices: 10257747--10257809 Score: 87
Period size: 20 Copynumber: 3.4 Consensus size: 19
10257737 TAGTATACCG
10257747 ATACACCTGCAGTGTATCC
1 ATACACCTGCAGTGTATCC
*
10257766 ATACA-CT--AGTGTATCG
1 ATACACCTGCAGTGTATCC
10257782 ATACACTCTGCAGTGTATCC
1 ATACAC-CTGCAGTGTATCC
10257802 ATACACCT
1 ATACACCT
10257810 TGGCTGCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 13 0.34
18 4 0.11
19 7 0.18
20 14 0.37
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (19 bp):
ATACACCTGCAGTGTATCC
Found at i:10258186 original size:32 final size:33
Alignment explanation
Indices: 10258150--10258219 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
10258140 TTCATTGTAA
* *
10258150 AGGGAAA-GTTCTAGCTGATCCCGTGAAAAGCT
1 AGGGAAAGGTTCTAGCTGAGCCCGTGAAAAACT
* *
10258182 AGGGAAAGGTTCTAGTTTAGCCCGTGAAAAACT
1 AGGGAAAGGTTCTAGCTGAGCCCGTGAAAAACT
10258215 AGGGA
1 AGGGA
10258220 GTTTGTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 7 0.21
33 26 0.79
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (33 bp):
AGGGAAAGGTTCTAGCTGAGCCCGTGAAAAACT
Found at i:10263582 original size:21 final size:21
Alignment explanation
Indices: 10263556--10263604 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
10263546 TTCTACCGCT
*
10263556 AATGAGAAGAGAAAATAAGAG
1 AATGAGAAGAGAAAAGAAGAG
* *
10263577 AATGAGAAGAGAATAGAATAG
1 AATGAGAAGAGAAAAGAAGAG
10263598 AATGAGA
1 AATGAGA
10263605 CAATTGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (21 bp):
AATGAGAAGAGAAAAGAAGAG
Found at i:10263931 original size:2 final size:2
Alignment explanation
Indices: 10263920--10263957 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
10263910 GTATAAAATA
*
10263920 AT AT -T AT AT AT AT AT AT AT AT AT AT AT -T AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10263958 TATTTTCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10265611 original size:32 final size:32
Alignment explanation
Indices: 10265525--10265725 Score: 181
Period size: 32 Copynumber: 6.3 Consensus size: 32
10265515 CACTATTTTG
* * * *
10265525 CTATGCATTATCTGAATGTAATACTAGCTCTG
1 CTATACATTACCTGAATGCAATACTAGCTCTA
* *
10265557 CTATA-ATTACCTGAATGTAATACTAACTCTA
1 CTATACATTACCTGAATGCAATACTAGCTCTA
* * * *
10265588 CTATACAATACATGAATACAATACTAGCTCTT
1 CTATACATTACCTGAATGCAATACTAGCTCTA
* * *
10265620 CTATGCATTACCTGAATGCAATACTGGCTCTG
1 CTATACATTACCTGAATGCAATACTAGCTCTA
* * * *
10265652 CTATGCATTATCTGAATTCAATACTAGCTCTG
1 CTATACATTACCTGAATGCAATACTAGCTCTA
* * * *
10265684 TTATGCATTACTTGAATGCAATAC-CGACTCTA
1 CTATACATTACCTGAATGCAATACTAG-CTCTA
*
10265716 CTATCCATTA
1 CTATACATTA
10265726 TATAAATGCA
Statistics
Matches: 140, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
31 29 0.21
32 111 0.79
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (32 bp):
CTATACATTACCTGAATGCAATACTAGCTCTA
Found at i:10265725 original size:64 final size:64
Alignment explanation
Indices: 10265525--10265726 Score: 241
Period size: 64 Copynumber: 3.2 Consensus size: 64
10265515 CACTATTTTG
* * * *
10265525 CTATGCATTATCTGAATGT-AATACTAGCTCTGCTAT-AATTACCTGAATGTAATACTAACTCTA
1 CTATGCATTATCTGAAT-TCAATACTAGCTCTGTTATGCATTACCTGAATGCAATACTGACTCTA
* * * *
10265588 CTATACAATA-CATGAATACAATACTAGCTCT-TCTATGCATTACCTGAATGCAATACTGGCTCT
1 CTATGCATTATC-TGAATTCAATACTAGCTCTGT-TATGCATTACCTGAATGCAATACTGACTCT
*
10265651 G
64 A
* *
10265652 CTATGCATTATCTGAATTCAATACTAGCTCTGTTATGCATTACTTGAATGCAATACCGACTCTA
1 CTATGCATTATCTGAATTCAATACTAGCTCTGTTATGCATTACCTGAATGCAATACTGACTCTA
*
10265716 CTATCCATTAT
1 CTATGCATTAT
10265727 ATAAATGCAA
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
62 1 0.01
63 28 0.24
64 85 0.73
65 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (64 bp):
CTATGCATTATCTGAATTCAATACTAGCTCTGTTATGCATTACCTGAATGCAATACTGACTCTA
Found at i:10265725 original size:96 final size:95
Alignment explanation
Indices: 10265525--10265725 Score: 226
Period size: 96 Copynumber: 2.1 Consensus size: 95
10265515 CACTATTTTG
* *
10265525 CTATGCATTATCTGAATGTAATACTAGCTCTGCTATAATTACCTGAATGTAATACTAACTCTACT
1 CTATGCATTACCTGAATGCAATACTAGCTCTGCTATAATTACCTGAATGTAATACTAACTCTACT
* *
10265590 ATACAATACATGAATACAATACTAGCTCTT
66 ATACAATACATGAATACAATACGAGCTCTA
* * * * *
10265620 CTATGCATTACCTGAATGCAATACTGGCTCTGCTATGCATTATCTGAAT-TCAATACTAGCTCTG
1 CTATGCATTACCTGAATGCAATACTAGCTCTGCTAT-AATTACCTGAATGT-AATACTAACTCTA
* * * * *
10265684 TTATGCATTACTTGAATGCAATACCGA-CTCTA
64 CTATACAATACATGAATACAATA-CGAGCTCTA
*
10265716 CTATCCATTA
1 CTATGCATTA
10265726 TATAAATGCA
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
95 34 0.39
96 52 0.59
97 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (95 bp):
CTATGCATTACCTGAATGCAATACTAGCTCTGCTATAATTACCTGAATGTAATACTAACTCTACT
ATACAATACATGAATACAATACGAGCTCTA
Found at i:10271205 original size:32 final size:32
Alignment explanation
Indices: 10271154--10271231 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 32
10271144 TATAAATTGG
* *
10271154 TCATTAAA-TTTATCGAATTGTTATAAAA-GAA
1 TCATTAAATTTTATCAAATTGTTACAAAATG-A
10271185 TCATTAAATTTTATCAAATTGTTACAAAATGA
1 TCATTAAATTTTATCAAATTGTTACAAAATGA
*
10271217 TTATTAAATATTTAT
1 TCATTAAAT-TTTAT
10271232 AAAAAATACA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 8 0.20
32 27 0.66
33 6 0.15
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (32 bp):
TCATTAAATTTTATCAAATTGTTACAAAATGA
Found at i:10271469 original size:30 final size:30
Alignment explanation
Indices: 10271433--10271493 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
10271423 ATGGAATGTC
*
10271433 ACAAAAT-ATCTTTAAACTTATTAAAATATT
1 ACAAAATGATCTTTAAACTTA-TAAAAAATT
**
10271463 ACAAAATGATCTTTCGACTTATAAAAAATT
1 ACAAAATGATCTTTAAACTTATAAAAAATT
10271493 A
1 A
10271494 AAGCTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.36
Consensus pattern (30 bp):
ACAAAATGATCTTTAAACTTATAAAAAATT
Found at i:10273152 original size:3 final size:3
Alignment explanation
Indices: 10273144--10273199 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
10273134 ACAGGGGTTG
10273144 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10273192 TAT TAT TA
1 TAT TAT TA
10273200 ACTACTATCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10281722 original size:21 final size:21
Alignment explanation
Indices: 10281698--10281759 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
10281688 ATTATCCAAT
*
10281698 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
*
10281719 AAACTTGAAATCCACAACAAC
1 AAACTTGAAATCCATAACAAC
*
10281740 AAACCTGAAATCCATAACAA
1 AAACTTGAAATCCATAACAA
10281760 TAAATCAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.52, C:0.27, G:0.05, T:0.16
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:10286551 original size:26 final size:26
Alignment explanation
Indices: 10286515--10286567 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10286505 TAGGAGAACA
10286515 TAAGGAACATTTGGTGAAAAGTTGTC
1 TAAGGAACATTTGGTGAAAAGTTGTC
10286541 TAAGGAACATTTGGTGAAAAGTTGTC
1 TAAGGAACATTTGGTGAAAAGTTGTC
10286567 T
1 T
10286568 GGTGTTCATA
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:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (26 bp):
TAAGGAACATTTGGTGAAAAGTTGTC
Found at i:10293700 original size:123 final size:123
Alignment explanation
Indices: 10293569--10293841 Score: 381
Period size: 123 Copynumber: 2.2 Consensus size: 123
10293559 AAACTATTAT
* *
10293569 GGCGTTTGTTTAAAAAATGCCATTAAATAACGATTCTTTTGC-GATGTTT-TTTAGAAACGCCAC
1 GGCGTTTGTTT-AAAAATGCCACTAAAGAACGATTCTTTTGCAGAT-TTTGTTTAGAAACGCCAC
* * *
10293632 TAATGTACGAGGTTTTAGCGGCGT-TTGTCTAAAAATGCCACAATATATGTACCCAATTGC
64 TAAAGTACGAGGTTTTAGCGGC-TCTTGCCTAAAAACGCCACAATATATGTACCCAATTGC
* *
10293692 GGCGTTTGTTTAAAAATGGCACTAAAGAACGATTCTTTTGCAGCTTTTGTTTAGAAACGCCACTA
1 GGCGTTTGTTTAAAAATGCCACTAAAGAACGATTCTTTTGCAGATTTTGTTTAGAAACGCCACTA
* * * *
10293757 AAGTACTAGGTTTTAGTGGCTCTTGCCTAAAAACGCCATAATATATGTACCCTATTGC
66 AAGTACGAGGTTTTAGCGGCTCTTGCCTAAAAACGCCACAATATATGTACCCAATTGC
* *
10293815 GACGTTTATTTAAAAATGCCACTAAAG
1 GGCGTTTGTTTAAAAATGCCACTAAAG
10293842 TACGGGTTTT
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
122 31 0.23
123 102 0.77
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (123 bp):
GGCGTTTGTTTAAAAATGCCACTAAAGAACGATTCTTTTGCAGATTTTGTTTAGAAACGCCACTA
AAGTACGAGGTTTTAGCGGCTCTTGCCTAAAAACGCCACAATATATGTACCCAATTGC
Found at i:10302941 original size:21 final size:21
Alignment explanation
Indices: 10302917--10302989 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
10302907 ATAGATGAGT
10302917 AGTATCGATACTGATGCAAGA
1 AGTATCGATACTGATGCAAGA
* *
10302938 AGTATCGATATTGATGCAACCA
1 AGTATCGATACTGATGCAA-GA
* *
10302960 A-TATCGATACTGATGGAAGC
1 AGTATCGATACTGATGCAAGA
10302980 AG-ATCGATAC
1 AGTATCGATAC
10302990 CGAAAGCGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 9 0.20
21 33 0.75
22 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (21 bp):
AGTATCGATACTGATGCAAGA
Found at i:10303547 original size:55 final size:55
Alignment explanation
Indices: 10303478--10303892 Score: 548
Period size: 55 Copynumber: 7.6 Consensus size: 55
10303468 AAATCCATGG
* * *
10303478 AATTCATCATTAGTTGATGAATAACCGTACATGTACTAAGTGTGCAAAACCACAT
1 AATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCAAAACCACAA
* * *
10303533 AATTCATCACT-AGTTGATGAATAACCGTACATGCACTAATTATGCAAAACCACAT
1 AATTCATCA-TGAGTTGATGAATAACCGTACATGCACTAAGTGTGCAAAACCACAA
*
10303588 AATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCAAAACCATAA
1 AATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCAAAACCACAA
* * * * *
10303643 AATTCATCATGAGTTGATGAATAACTGTACAGGCTCTAAGTGTACAAAACCACAG
1 AATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCAAAACCACAA
* *
10303698 AATTCATCATGAGTTGATGAATAACCATACATGCACTAAGTGTGCAAAACCACGA
1 AATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCAAAACCACAA
* * * *
10303753 AATTCATTATGAGTTGTTGAATAACCGTACAGGCACTAAGTGTGCAAATCCACAA
1 AATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCAAAACCACAA
* * * * * * * *
10303808 AATGCATCAGGAGTTGATGAATAACCATACATGCACTATGTATAC-AACCCACAG
1 AATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCAAAACCACAA
*
10303862 ACTTCATCATGAGTTGATGAACT-ACCGTACA
1 AATTCATCATGAGTTGATGAA-TAACCGTACA
10303893 GGCAGTACCT
Statistics
Matches: 316, Mismatches: 41, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
54 33 0.10
55 282 0.89
56 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (55 bp):
AATTCATCATGAGTTGATGAATAACCGTACATGCACTAAGTGTGCAAAACCACAA
Found at i:10304146 original size:23 final size:23
Alignment explanation
Indices: 10304120--10304212 Score: 73
Period size: 23 Copynumber: 4.1 Consensus size: 23
10304110 AGCAGAGTGT
10304120 ATCGATGCACATTCAAAGAATGC
1 ATCGATGCACATTCAAAGAATGC
* * * *
10304143 ATCGATGTACCTTC--ATAATGT
1 ATCGATGCACATTCAAAGAATGC
* * *
10304164 ATCGATGCATATTCAAGGGATGC
1 ATCGATGCACATTCAAAGAATGC
* * * *
10304187 ATCGGTGCATATTCAAGGGATGC
1 ATCGATGCACATTCAAAGAATGC
10304210 ATC
1 ATC
10304213 AGTGCGCTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
21 16 0.29
23 40 0.71
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (23 bp):
ATCGATGCACATTCAAAGAATGC
Found at i:10304178 original size:21 final size:21
Alignment explanation
Indices: 10304097--10304178 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
10304087 ACCTGACGAG
* * *
10304097 TGTATCGATACACA-GCAGAG
1 TGTATCGATGCACATTCAGAA
10304117 TGTATCGATGCACATTCAAAGAA
1 TGTATCGATGCACATTC--AGAA
* * * *
10304140 TGCATCGATGTACCTTCATAA
1 TGTATCGATGCACATTCAGAA
*
10304161 TGTATCGATGCATATTCA
1 TGTATCGATGCACATTCA
10304179 AGGGATGCAT
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 13 0.27
21 18 0.38
23 17 0.35
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (21 bp):
TGTATCGATGCACATTCAGAA
Found at i:10304224 original size:23 final size:23
Alignment explanation
Indices: 10304169--10304217 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10304159 AATGTATCGA
*
10304169 TGCATATTCAAGGGATGCATCGG
1 TGCATATTCAAGGGATGCATCAG
10304192 TGCATATTCAAGGGATGCATCAG
1 TGCATATTCAAGGGATGCATCAG
10304215 TGC
1 TGC
10304218 GCTTTCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (23 bp):
TGCATATTCAAGGGATGCATCAG
Found at i:10308075 original size:22 final size:21
Alignment explanation
Indices: 10308033--10308072 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10308023 GAGATTATTT
*
10308033 TCATTTTTTAATTTTGAAATA
1 TCATTTTTTAATTTTAAAATA
10308054 TCATTTTTGT-ATTTTAAAA
1 TCATTTTT-TAATTTTAAAA
10308073 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TCATTTTTTAATTTTAAAATA
Found at i:10310951 original size:20 final size:19
Alignment explanation
Indices: 10310928--10310971 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
10310918 GATTATGCTG
*
10310928 GAAATCAATGTTAGAGTGTT
1 GAAATCAATGTTAGAATG-T
**
10310948 GAAATTGATGTTAGAATGT
1 GAAATCAATGTTAGAATGT
10310967 GAAAT
1 GAAAT
10310972 AAGATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (19 bp):
GAAATCAATGTTAGAATGT
Found at i:10312529 original size:39 final size:39
Alignment explanation
Indices: 10312399--10312588 Score: 195
Period size: 39 Copynumber: 4.9 Consensus size: 39
10312389 AGAGAAACCT
* * *
10312399 AGTGCATATGGTGGGTACAACCTTATGTGTAAGCACTTT
1 AGTGCATATGGTGGGCACGACCTTATGTGTAAGCACTTC
* **
10312438 AGTGCATACGGTGCACACGACCTTATGTGTAAGCACTTC
1 AGTGCATATGGTGGGCACGACCTTATGTGTAAGCACTTC
* *
10312477 GGTGTATATGGTGGGCACGACCTTATGTGTAAGCACTTC
1 AGTGCATATGGTGGGCACGACCTTATGTGTAAGCACTTC
* ** * * *
10312516 AGTCCATATGGTGGG-TTGACCTTGTGTGTAAGAAATT-
1 AGTGCATATGGTGGGCACGACCTTATGTGTAAGCACTTC
* * * *
10312553 TGATGCATATGGTGGGTACGACCGTATATGTAAGCA
1 AG-TGCATATGGTGGGCACGACCTTATGTGTAAGCA
10312589 AATCGATGCA
Statistics
Matches: 122, Mismatches: 27, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
37 1 0.01
38 29 0.24
39 92 0.75
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (39 bp):
AGTGCATATGGTGGGCACGACCTTATGTGTAAGCACTTC
Found at i:10312574 original size:77 final size:78
Alignment explanation
Indices: 10312401--10312588 Score: 216
Period size: 77 Copynumber: 2.4 Consensus size: 78
10312391 AGAAACCTAG
* * *
10312401 TGCATATGGTGGGTACAACCTTATGTGTAAGCACTTTAGTGCATACGGTGCACACGACCTTATGT
1 TGCATATGGTGGGTACGACCTTATGTGTAAGCACTTCAGTCCATACGGTGCACACGACCTTATGT
* * *
10312466 GTAAGCACTTCGG
66 GTAAGAAATTCGA
* * * **** *
10312479 TGTATATGGTGGGCACGACCTTATGTGTAAGCACTTCAGTCCATATGGTG-GGTTGACCTTGTGT
1 TGCATATGGTGGGTACGACCTTATGTGTAAGCACTTCAGTCCATACGGTGCACACGACCTTATGT
*
10312543 GTAAGAAATTTGA
66 GTAAGAAATTCGA
* *
10312556 TGCATATGGTGGGTACGACCGTATATGTAAGCA
1 TGCATATGGTGGGTACGACCTTATGTGTAAGCA
10312589 AATCGATGCA
Statistics
Matches: 91, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
77 47 0.52
78 44 0.48
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (78 bp):
TGCATATGGTGGGTACGACCTTATGTGTAAGCACTTCAGTCCATACGGTGCACACGACCTTATGT
GTAAGAAATTCGA
Found at i:10312955 original size:18 final size:18
Alignment explanation
Indices: 10312932--10312966 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10312922 GTTAGTATTA
10312932 AATAAA-ATTAATTATATG
1 AATAAATATT-ATTATATG
10312950 AATAAATATTATTATAT
1 AATAAATATTATTATAT
10312967 TAAATTGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AATAAATATTATTATATG
Found at i:10318226 original size:19 final size:20
Alignment explanation
Indices: 10318184--10318227 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
10318174 AATATGCTGA
* *
10318184 AAATTAATGTTAGAGTGTTG
1 AAATTGATGTTAGAATGTTG
10318204 -AATTGATGTTAGAATG-TG
1 AAATTGATGTTAGAATGTTG
10318222 AAATTG
1 AAATTG
10318228 GATTATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (20 bp):
AAATTGATGTTAGAATGTTG
Found at i:10318600 original size:52 final size:52
Alignment explanation
Indices: 10318522--10318626 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
10318512 TGAAATCAAG
10318522 ATCAAACAATATTAAAGCTAAGGAGAAGCTAAAGGATGAAATATGAATTTCT
1 ATCAAACAATATTAAAGCTAAGGAGAAGCTAAAGGATGAAATATGAATTTCT
10318574 ATCAAACAATATTAAAGCTAAGGAGAAGCTAAAGGATGAAATATGAATTTCT
1 ATCAAACAATATTAAAGCTAAGGAGAAGCTAAAGGATGAAATATGAATTTCT
10318626 A
1 A
10318627 AGGAAGGTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.25
Consensus pattern (52 bp):
ATCAAACAATATTAAAGCTAAGGAGAAGCTAAAGGATGAAATATGAATTTCT
Found at i:10320143 original size:24 final size:24
Alignment explanation
Indices: 10320111--10320160 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
10320101 TGTGTATGAG
*
10320111 TAAGAAATGTTTGCAAATTATAAA
1 TAAGAAATGTTTACAAATTATAAA
10320135 TAAGAAATGTTTACAAATTATAAA
1 TAAGAAATGTTTACAAATTATAAA
10320159 TA
1 TA
10320161 TGGTTAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (24 bp):
TAAGAAATGTTTACAAATTATAAA
Found at i:10320241 original size:22 final size:24
Alignment explanation
Indices: 10320196--10320248 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
10320186 GTATGAATAA
* *
10320196 ATTTTAATATATTAAATTTTATTTT
1 ATTTT-ATATATTAAATTTAATTTG
10320221 ATTTTATATATT-AA-TTAATTTG
1 ATTTTATATATTAAATTTAATTTG
10320243 ATTTTA
1 ATTTTA
10320249 AAATTTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 12 0.46
23 2 0.08
24 7 0.27
25 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTATATATTAAATTTAATTTG
Found at i:10321915 original size:18 final size:19
Alignment explanation
Indices: 10321894--10321936 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
10321884 TTGGTATCAG
10321894 TACTCAAGG-GAGTATCGA
1 TACTCAAGGAGAGTATCGA
* *
10321912 TACTGAGGGTAGAGTATCGA
1 TACTCAAGG-AGAGTATCGA
10321932 TACTC
1 TACTC
10321937 CTAATAGCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 7 0.35
20 13 0.65
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (19 bp):
TACTCAAGGAGAGTATCGA
Found at i:10323875 original size:29 final size:29
Alignment explanation
Indices: 10323814--10323875 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
10323804 ATTGACAACT
* * * *
10323814 TTTTCAAAATTATTGAATTGGTCCCTAAC
1 TTTTCAAAATTATTAAAATGGTCCCCAAA
10323843 TTTTCAAAAATTA-TAAAATGGTCCCCAAA
1 TTTTC-AAAATTATTAAAATGGTCCCCAAA
10323872 TTTT
1 TTTT
10323876 TCTAAAGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.40
Consensus pattern (29 bp):
TTTTCAAAATTATTAAAATGGTCCCCAAA
Found at i:10323877 original size:30 final size:29
Alignment explanation
Indices: 10323813--10323877 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
10323803 CATTGACAAC
* * *
10323813 TTTTTCAAAATTATTGAATTGGTCCCTAA
1 TTTTTCAAAATTATTAAAATGGTCCCAAA
*
10323842 CTTTTCAAAAATTA-TAAAATGGTCCCCAAA
1 TTTTTC-AAAATTATTAAAATGGT-CCCAAA
10323872 TTTTTC
1 TTTTTC
10323878 TAAAGCTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.42
Consensus pattern (29 bp):
TTTTTCAAAATTATTAAAATGGTCCCAAA
Found at i:10324609 original size:30 final size:31
Alignment explanation
Indices: 10324575--10324632 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
10324565 ATTAAACCAA
10324575 GACACCT-AACCTTATCATCTACCATAATAT
1 GACACCTCAACCTTATCATCTACCATAATAT
*
10324605 GACACCTCAACCTTATCATCTCCCATAA
1 GACACCTCAACCTTATCATCTACCATAA
10324633 GTCAAAGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.28
Consensus pattern (31 bp):
GACACCTCAACCTTATCATCTACCATAATAT
Found at i:10329660 original size:59 final size:59
Alignment explanation
Indices: 10329568--10329694 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 59
10329558 TGTAGTGCAA
* * * ** *
10329568 CCCGAGTATGACACATAAGGTCATGTCCACCATATGTACTAGGTATCCTTAAGTATAGT
1 CCCGAATATAACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTATAAT
* ** * *
10329627 CCCGAATATAACACATAAGGTCGTGCCCACCATATACACTATTTATCCTTTAGTGTAAT
1 CCCGAATATAACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTATAAT
10329686 CCCGAATAT
1 CCCGAATAT
10329695 GAAGCCTGAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (59 bp):
CCCGAATATAACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTATAAT
Found at i:10333886 original size:15 final size:15
Alignment explanation
Indices: 10333866--10333896 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10333856 AAGAAATTTG
10333866 ATCCCATAAATGAAT
1 ATCCCATAAATGAAT
10333881 ATCCCATAAATGAAT
1 ATCCCATAAATGAAT
10333896 A
1 A
10333897 GTTCACACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (15 bp):
ATCCCATAAATGAAT
Found at i:10336330 original size:22 final size:22
Alignment explanation
Indices: 10336286--10336330 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10336276 CGTTGGTTAT
*
10336286 TATATATGACGTTTATCATGAA
1 TATATATGACGTTTATCACGAA
* *
10336308 TATATATGATGTTTATTACGAA
1 TATATATGACGTTTATCACGAA
10336330 T
1 T
10336331 GTTATTTCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (22 bp):
TATATATGACGTTTATCACGAA
Found at i:10347460 original size:29 final size:31
Alignment explanation
Indices: 10347390--10347462 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
10347380 AAAATTATTT
*
10347390 CTTTGGTCCCTAAACTTTTCCAAACATTATA
1 CTTTGGTCACTAAACTTTTCCAAACATTATA
* *
10347421 CTTTAGCCACTAAA-TTTT-CAAA-ATTTATA
1 CTTTGGTCACTAAACTTTTCCAAACA-TTATA
*
10347450 TTTTGGTCACTAA
1 CTTTGGTCACTAA
10347463 CCAAAATTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.03
29 19 0.54
30 4 0.11
31 11 0.31
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.41
Consensus pattern (31 bp):
CTTTGGTCACTAAACTTTTCCAAACATTATA
Found at i:10349530 original size:30 final size:31
Alignment explanation
Indices: 10349474--10349551 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 31
10349464 AATTTGATCC
* *
10349474 CTAAACTTT-TGAAAA-TTACTCTTTTGGTCA
1 CTAAACTTTCT-AAAATTTATTCTTTTGGCCA
*
10349504 TTAAACTTTCTAAAATTTATTC-TTTGGCCA
1 CTAAACTTTCTAAAATTTATTCTTTTGGCCA
*
10349534 CT-AACTTTC-AAATTTTAT
1 CTAAACTTTCTAAAATTTAT
10349552 ATTTTAGTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
28 8 0.20
29 7 0.17
30 20 0.49
31 6 0.15
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (31 bp):
CTAAACTTTCTAAAATTTATTCTTTTGGCCA
Found at i:10357035 original size:22 final size:22
Alignment explanation
Indices: 10357010--10357067 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
10357000 CTGGAAGGGG
10357010 GTATCGGTACCATAGTATAGTA
1 GTATCGGTACCATAGTATAGTA
*
10357032 GTATCGGTACCATAGTATGGTA
1 GTATCGGTACCATAGTATAGTA
*
10357054 GTATCGATACCATA
1 GTATCGGTACCATA
10357068 ATAAGGGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (22 bp):
GTATCGGTACCATAGTATAGTA
Found at i:10357620 original size:47 final size:47
Alignment explanation
Indices: 10357562--10357831 Score: 384
Period size: 47 Copynumber: 5.8 Consensus size: 47
10357552 ATAAAAGAAT
10357562 AATGCAT--AAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAA
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAA
* *
10357607 AATCCAAGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAA
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAA
* *
10357654 AATGCAAGAAATGATGCATTAAGGCATGAAAGGATGCCATAACTAAA
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAA
* * *
10357701 AATGCAAGAAATGATGCATTAAGGCATGAAAGGATGCCATTAC-AAA
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAA
* * ** *
10357747 ATATGCATGAAAGGATACATTAAGGCATCAAAGGATGCCATTGCAAAA
1 A-ATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAA
* *
10357795 AATGCATGAAATGATGCATTAAGGCATCAAAGGATGC
1 AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
10357832 ATTAAGGCAT
Statistics
Matches: 209, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
45 5 0.02
46 4 0.02
47 196 0.94
48 4 0.02
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.20
Consensus pattern (47 bp):
AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAA
Found at i:10357684 original size:94 final size:94
Alignment explanation
Indices: 10357569--10358081 Score: 532
Period size: 94 Copynumber: 5.3 Consensus size: 94
10357559 AATAATGCAT
* *
10357569 AAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATCCAAGAAAGGATGCATTAAGGCAT
1 AAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAAGAAATGATGCATTAAGGCAT
10357634 GAAAGGATGCCATAACTAAAA-ATGCAAGA
66 GAAAGGATGCCATAAC-AAAATATGCAAGA
*
10357663 AATGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAAGAAATGATGCATTAAGGCAT
1 AAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAAGAAATGATGCATTAAGGCAT
* *
10357728 GAAAGGATGCCATTACAAAATATGCATGA
66 GAAAGGATGCCATAACAAAATATGCAAGA
* * ** * *
10357757 AAGGATACATTAAGGCATCAAAGGATGCCATTGCAAAAAATGCATGAAATGATGCATTAAGGCAT
1 AAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAAGAAATGATGCATTAAGGCAT
*
10357822 CAAAGGATG-CATTAAGGCATCAAATGATGCCATAACTAAAAATGCATGA
66 GAAAGGATGCCA-TAA--CA--AAAT-ATG------C-----A---A-GA
* * *
10357871 AAGGATGCATTAAGGCATGAAAGGATACCATAACTAAAAATGCATGAAAGGATGCATTAAGGCAT
1 AAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAAGAAATGATGCATTAAGGCAT
* * * *
10357936 AAAAGGATACCATAACTAAAA-ATACATGA
66 GAAAGGATGCCATAAC-AAAATATGCAAGA
* * * *
10357965 AAGGATGCATTAAGGTATGAAAGGATGCCGTAACTAAAAATGCATGAAAGGATGCA-TAAGGCAT
1 AAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAAGAAATGATGCATTAAGGCAT
* * *
10358029 GAAAGGATGCCTTAACTAAAAAAT-CATGA
66 GAAAGGATGCCATAAC-AAAATATGCAAGA
*
10358058 AATGATGCATTAAGGCATGAAAGG
1 AAGGATGCATTAAGGCATGAAAGG
10358082 CTATCACAAC
Statistics
Matches: 360, Mismatches: 34, Indels: 51
0.81 0.08 0.11
Matches are distributed among these distances:
93 59 0.16
94 209 0.58
96 2 0.01
98 5 0.01
99 3 0.01
103 1 0.00
105 1 0.00
109 2 0.01
110 1 0.00
111 3 0.01
112 1 0.00
113 1 0.00
114 70 0.19
115 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (94 bp):
AAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAAGAAATGATGCATTAAGGCAT
GAAAGGATGCCATAACAAAATATGCAAGA
Found at i:10357834 original size:161 final size:161
Alignment explanation
Indices: 10357666--10357992 Score: 494
Period size: 161 Copynumber: 2.0 Consensus size: 161
10357656 TGCAAGAAAT
* *
10357666 GATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAAGAAATGATGCATTAAGGCATGAA
1 GATGCATTAAGGCATCAAAGGATGCCATAACTAAAAATGCAAGAAAGGATGCATTAAGGCATGAA
* * * * **
10357731 AGGATGCCATTAC-AAAATATGCATGAAAGGATACATTAAGGCATCAAAGGATGCCATTGCAAAA
66 AGGATACCATAACTAAAA-ATGCATGAAAGGATACATTAAGGCATAAAAGGATACCATAACAAAA
* *
10357795 AATGCATGAAATGATGCATTAAGGCATCAAAG
130 AATACATGAAAGGATGCATTAAGGCATCAAAG
* *
10357827 GATGCATTAAGGCATCAAATGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAA
1 GATGCATTAAGGCATCAAAGGATGCCATAACTAAAAATGCAAGAAAGGATGCATTAAGGCATGAA
* *
10357892 AGGATACCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATACCATAACTAAAA
66 AGGATACCATAACTAAAAATGCATGAAAGGATACATTAAGGCATAAAAGGATACCATAACAAAAA
* *
10357957 ATACATGAAAGGATGCATTAAGGTATGAAAG
131 ATACATGAAAGGATGCATTAAGGCATCAAAG
10357988 GATGC
1 GATGC
10357993 CGTAACTAAA
Statistics
Matches: 149, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
161 145 0.97
162 4 0.03
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.20
Consensus pattern (161 bp):
GATGCATTAAGGCATCAAAGGATGCCATAACTAAAAATGCAAGAAAGGATGCATTAAGGCATGAA
AGGATACCATAACTAAAAATGCATGAAAGGATACATTAAGGCATAAAAGGATACCATAACAAAAA
ATACATGAAAGGATGCATTAAGGCATCAAAG
Found at i:10357838 original size:114 final size:114
Alignment explanation
Indices: 10357713--10357943 Score: 347
Period size: 114 Copynumber: 2.0 Consensus size: 114
10357703 TGCAAGAAAT
* *
10357713 GATGCATTAAGGCATGAAAGGATGCCATTAC-AAAATATGCATGAAAGGATACATTAAGGCATCA
1 GATGCATTAAGGCATCAAAGGATGCCATAACTAAAA-ATGCATGAAAGGATACATTAAGGCATCA
* ** * *
10357777 AAGGATGCCATTGCAAAAAATGCATGAAATGATGCATTAAGGCATCAAAG
65 AAGGATACCATAACAAAAAATGCATGAAAGGATGCATTAAGGCATAAAAG
* * *
10357827 GATGCATTAAGGCATCAAATGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAA
1 GATGCATTAAGGCATCAAAGGATGCCATAACTAAAAATGCATGAAAGGATACATTAAGGCATCAA
*
10357892 AGGATACCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATAAAAG
66 AGGATACCATAACAAAAAATGCATGAAAGGATGCATTAAGGCATAAAAG
10357941 GAT
1 GAT
10357944 ACCATAACTA
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 101 0.96
115 4 0.04
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (114 bp):
GATGCATTAAGGCATCAAAGGATGCCATAACTAAAAATGCATGAAAGGATACATTAAGGCATCAA
AGGATACCATAACAAAAAATGCATGAAAGGATGCATTAAGGCATAAAAG
Found at i:10357841 original size:67 final size:67
Alignment explanation
Indices: 10357751--10357898 Score: 233
Period size: 67 Copynumber: 2.2 Consensus size: 67
10357741 TACAAAATAT
** *
10357751 GCATGAAAGGATACATTAAGGCATCAAAGGATGCCATTGCAAAAAATGCATGAAATGATGCATTA
1 GCATGAAAGGATACATTAAGGCATCAAAGGATGCCATAACAAAAAATGCATGAAAGGATGCATTA
10357816 AG
66 AG
* * * *
10357818 GCATCAAAGGATGCATTAAGGCATCAAATGATGCCATAACTAAAAATGCATGAAAGGATGCATTA
1 GCATGAAAGGATACATTAAGGCATCAAAGGATGCCATAACAAAAAATGCATGAAAGGATGCATTA
10357883 AG
66 AG
10357885 GCATGAAAGGATAC
1 GCATGAAAGGATAC
10357899 CATAACTAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 72 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.20
Consensus pattern (67 bp):
GCATGAAAGGATACATTAAGGCATCAAAGGATGCCATAACAAAAAATGCATGAAAGGATGCATTA
AG
Found at i:10357874 original size:47 final size:47
Alignment explanation
Indices: 10357818--10358081 Score: 406
Period size: 47 Copynumber: 5.6 Consensus size: 47
10357808 ATGCATTAAG
* * *
10357818 GCATCAAAGGATGCATTAAGGCATCAAATGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
*
10357865 GCATGAAAGGATGCATTAAGGCATGAAAGGATACCATAACTAAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
* *
10357912 GCATGAAAGGATGCATTAAGGCATAAAAGGATACCATAACTAAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
* * *
10357959 ACATGAAAGGATGCATTAAGGTATGAAAGGATGCCGTAACTAAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
*
10358006 GCATGAAAGGATGCA-TAAGGCATGAAAGGATGCCTTAACTAAAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT-AAAAAT
*
10358053 -CATGAAATGATGCATTAAGGCATGAAAGG
1 GCATGAAAGGATGCATTAAGGCATGAAAGG
10358082 CTATCACAAC
Statistics
Matches: 201, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
46 36 0.18
47 165 0.82
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (47 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT
Found at i:10357927 original size:208 final size:207
Alignment explanation
Indices: 10357615--10358043 Score: 644
Period size: 208 Copynumber: 2.1 Consensus size: 207
10357605 AAAATCCAAG
* *
10357615 AAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAAGAAATGATGCATTAAGGCA
1 AAAGGATGCATTAAGGCATCAAAGGATGCCATAACTAAAAATGCAAGAAAGGATGCATTAAGGCA
* * * * *
10357680 TGAAAGGATGCCATAACTAAAAATGCAAGAAATGATGCATTAAGGCATGAAAGGATGCCATTAC-
66 TGAAAGGATACCATAACTAAAAATGCAAGAAAGGATGCATTAAGGCATAAAAGGATACCATAACT
* ** *
10357744 AAAATATGCATGAAAGGATACATTAAGGCATCAAAGGATGCCATTGCAAAAAATGCATGAAATGA
131 AAAA-ATACATGAAAGGATACATTAAGGCATCAAAGGATGCCATAACAAAAAATGCATGAAAGGA
10357809 TGCATTAAGGCATC
195 TGCA-TAAGGCATC
* *
10357823 AAAGGATGCATTAAGGCATCAAATGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCA
1 AAAGGATGCATTAAGGCATCAAAGGATGCCATAACTAAAAATGCAAGAAAGGATGCATTAAGGCA
*
10357888 TGAAAGGATACCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATACCATAACT
66 TGAAAGGATACCATAACTAAAAATGCAAGAAAGGATGCATTAAGGCATAAAAGGATACCATAACT
* * * * *
10357953 AAAAATACATGAAAGGATGCATTAAGGTATGAAAGGATGCCGTAACTAAAAATGCATGAAAGGAT
131 AAAAATACATGAAAGGATACATTAAGGCATCAAAGGATGCCATAACAAAAAATGCATGAAAGGAT
*
10358018 GCATAAGGCATG
196 GCATAAGGCATC
*
10358030 AAAGGATGCCTTAA
1 AAAGGATGCATTAA
10358044 CTAAAAAATC
Statistics
Matches: 199, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
207 21 0.11
208 174 0.87
209 4 0.02
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (207 bp):
AAAGGATGCATTAAGGCATCAAAGGATGCCATAACTAAAAATGCAAGAAAGGATGCATTAAGGCA
TGAAAGGATACCATAACTAAAAATGCAAGAAAGGATGCATTAAGGCATAAAAGGATACCATAACT
AAAAATACATGAAAGGATACATTAAGGCATCAAAGGATGCCATAACAAAAAATGCATGAAAGGAT
GCATAAGGCATC
Found at i:10358526 original size:29 final size:29
Alignment explanation
Indices: 10358489--10358544 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
10358479 CAGTTAAATT
* *
10358489 AACAGTTAAACACTGTTAAGTAAAAGATG
1 AACAATTAAACACTATTAAGTAAAAGATG
10358518 AACAATTAAACACTATTAAGTAAAAGA
1 AACAATTAAACACTATTAAGTAAAAGA
10358545 ATAATGGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.23
Consensus pattern (29 bp):
AACAATTAAACACTATTAAGTAAAAGATG
Found at i:10360651 original size:2 final size:2
Alignment explanation
Indices: 10360644--10360683 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10360634 TGTCAGGAAG
10360644 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10360684 TATGGTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10365848 original size:2 final size:2
Alignment explanation
Indices: 10365841--10365870 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10365831 TGTCAGGAAG
10365841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10365871 TATGGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10368644 original size:20 final size:20
Alignment explanation
Indices: 10368619--10368691 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 20
10368609 AATAATGCAT
10368619 AAGGATGCATTAAGACATGA
1 AAGGATGCATTAAGACATGA
*
10368639 AAGGATGTCATAACTAAAAATGCATGA
1 AAGGATG-CAT---T-AAGA--CATGA
10368666 AAGGATGCATTAAGACATGA
1 AAGGATGCATTAAGACATGA
10368686 AAGGAT
1 AAGGAT
10368692 ACCATAACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
20 18 0.41
21 3 0.07
22 3 0.07
23 1 0.02
24 1 0.02
25 3 0.07
26 3 0.07
27 12 0.27
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.21
Consensus pattern (20 bp):
AAGGATGCATTAAGACATGA
Found at i:10368672 original size:47 final size:47
Alignment explanation
Indices: 10368612--10368847 Score: 343
Period size: 47 Copynumber: 5.1 Consensus size: 47
10368602 ATAATAGAAT
*
10368612 AATGCAT--AAGGATGCATTAAGACATGAAAGGATGTCATAACTAAA
1 AATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAA
*
10368657 AATGCATGAAAGGATGCATTAAGACATGAAAGGATACCATAACTAAA
1 AATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAA
* * * * *
10368704 AATACATGAAAGAATGCTTTAAGGCATGAAAGGATGCCATAACAAAA
1 AATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAA
*
10368751 AATGCATGAAAGGATGCATTAAGTCATGAAAGGATGCCATAACTAAA
1 AATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAA
* * *
10368798 AAT-AATTGAAAGGATGCATTAAGGCATGAAAGGATGTCATAACTAAA
1 AATGCA-TGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAA
10368845 AAT
1 AAT
10368848 TAAATTAACA
Statistics
Matches: 172, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 7 0.04
46 1 0.01
47 164 0.95
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.21
Consensus pattern (47 bp):
AATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAA
Found at i:10368780 original size:20 final size:20
Alignment explanation
Indices: 10368755--10368833 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 20
10368745 ACAAAAAATG
10368755 CATGAAAGGATGCATTAAGT
1 CATGAAAGGATGCATTAAGT
*
10368775 CATGAAAGGATGCCATAACTAAAAAT
1 CATGAAAGGATG-CAT---T--AAGT
* *
10368801 AATTGAAAGGATGCATTAAGG
1 CA-TGAAAGGATGCATTAAGT
10368822 CATGAAAGGATG
1 CATGAAAGGATG
10368834 TCATAACTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
20 22 0.47
21 6 0.13
23 1 0.02
24 1 0.02
26 7 0.15
27 10 0.21
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (20 bp):
CATGAAAGGATGCATTAAGT
Found at i:10376764 original size:20 final size:21
Alignment explanation
Indices: 10376739--10376778 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10376729 TAAATACTTA
*
10376739 TTTTTTA-TTAATTAATAATT
1 TTTTTTACTAAATTAATAATT
10376759 TTTTTTACTAAATTAATAAT
1 TTTTTTACTAAATTAATAAT
10376779 AAATAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTTACTAAATTAATAATT
Found at i:10377188 original size:25 final size:25
Alignment explanation
Indices: 10377160--10377220 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
10377150 TCTAATTACA
*
10377160 AATATTTTTTATAATTTAATCT-TTT
1 AATATTTTTTACAATTTAAT-TATTT
10377185 AATATTTTTTACAATTTAATTATTT
1 AATATTTTTTACAATTTAATTATTT
10377210 AAT-TTTATTTA
1 AATATTT-TTTA
10377221 ATCTAGTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (25 bp):
AATATTTTTTACAATTTAATTATTT
Found at i:10380203 original size:26 final size:26
Alignment explanation
Indices: 10380174--10380226 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10380164 ATGAGGTTTG
10380174 AGCGTGTATTGCTGGTGCGTTTTTAT
1 AGCGTGTATTGCTGGTGCGTTTTTAT
10380200 AGCGTGTATTGCTGGTGCGTTTTTAT
1 AGCGTGTATTGCTGGTGCGTTTTTAT
10380226 A
1 A
10380227 ATTTACTTTA
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:0.13, C:0.11, G:0.30, T:0.45
Consensus pattern (26 bp):
AGCGTGTATTGCTGGTGCGTTTTTAT
Found at i:10382355 original size:20 final size:21
Alignment explanation
Indices: 10382332--10382384 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
10382322 TTACTATCTA
* *
10382332 AATTAAGAATTAATT-TAAAG
1 AATTAAGAAATAATTAAAAAG
*
10382352 AATTAA-AAATGATTAAAAAG
1 AATTAAGAAATAATTAAAAAG
10382372 AATTAAGAAATAA
1 AATTAAGAAATAA
10382385 ATTCTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.22
20 16 0.59
21 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.28
Consensus pattern (21 bp):
AATTAAGAAATAATTAAAAAG
Found at i:10383301 original size:12 final size:13
Alignment explanation
Indices: 10383284--10383312 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10383274 CTTAATTGCG
10383284 AAAATTAAAA-TT
1 AAAATTAAAATTT
10383296 AAAATTAAAATTT
1 AAAATTAAAATTT
10383309 AAAA
1 AAAA
10383313 CCCGATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:10388990 original size:24 final size:25
Alignment explanation
Indices: 10388951--10389002 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
10388941 TCTAATTGCA
*
10388951 AATATTTCTTATAATTTAATCT-TTT
1 AATATTTCTTACAATTTAAT-TATTT
10388976 AATATTT-TTACAATTTAATTATTT
1 AATATTTCTTACAATTTAATTATTT
10389000 AAT
1 AAT
10389003 TTTATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 17 0.68
25 7 0.28
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (25 bp):
AATATTTCTTACAATTTAATTATTT
Found at i:10390001 original size:20 final size:19
Alignment explanation
Indices: 10389958--10390013 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
10389948 TTTTTCGTTT
* *
10389958 AGTATCTATACCCAAGGGAG
1 AGTATCGATACCCAA-GGAC
10389978 AGTATCGATACCCAAGGATC
1 AGTATCGATACCCAAGGA-C
10389998 AGTA-CAGATA-CCAAGG
1 AGTATC-GATACCCAAGG
10390014 GGCTCAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (19 bp):
AGTATCGATACCCAAGGAC
Found at i:10393713 original size:20 final size:19
Alignment explanation
Indices: 10393688--10393743 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
10393678 ATAGAATCTC
10393688 AATTAAGAATTAAAATAAAG
1 AATTAAGAATTAAAA-AAAG
* ** *
10393708 AATTAAAAACGATTAAAAAG
1 AATTAAGAATTA-AAAAAAG
10393728 AATTAAGAATTAAAAA
1 AATTAAGAATTAAAAA
10393744 TGATTAAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
19 3 0.11
20 22 0.81
21 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATTAAGAATTAAAAAAAG
Found at i:10393724 original size:10 final size:9
Alignment explanation
Indices: 10393704--10393787 Score: 68
Period size: 10 Copynumber: 9.0 Consensus size: 9
10393694 GAATTAAAAT
10393704 AAAGAATTAA
1 AAAG-ATTAA
10393714 AAACGATTAA
1 AAA-GATTAA
10393724 AAAGAATT-A
1 AAAG-ATTAA
*
10393733 AGA-ATTAA
1 AAAGATTAA
10393741 AAATGATTAA
1 AAA-GATTAA
10393751 AAAGAATT-A
1 AAAG-ATTAA
10393760 AAA-ATTAA
1 AAAGATTAA
10393768 AAATGATTAA
1 AAA-GATTAA
10393778 AAAGAATTAA
1 AAAG-ATTAA
10393788 GAATTAAATT
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
7 6 0.10
8 7 0.11
9 10 0.16
10 38 0.61
11 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.10, T:0.24
Consensus pattern (9 bp):
AAAGATTAA
Found at i:10393736 original size:27 final size:27
Alignment explanation
Indices: 10393705--10393795 Score: 164
Period size: 27 Copynumber: 3.4 Consensus size: 27
10393695 AATTAAAATA
*
10393705 AAGAATTAAAAACGATTAAAAAGAATT
1 AAGAATTAAAAATGATTAAAAAGAATT
10393732 AAGAATTAAAAATGATTAAAAAGAATT
1 AAGAATTAAAAATGATTAAAAAGAATT
*
10393759 AAAAATTAAAAATGATTAAAAAGAATT
1 AAGAATTAAAAATGATTAAAAAGAATT
10393786 AAGAATTAAA
1 AAGAATTAAA
10393796 TTCTAAAATG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.65, C:0.01, G:0.10, T:0.24
Consensus pattern (27 bp):
AAGAATTAAAAATGATTAAAAAGAATT
Found at i:10393741 original size:17 final size:18
Alignment explanation
Indices: 10393719--10393795 Score: 65
Period size: 17 Copynumber: 4.3 Consensus size: 18
10393709 ATTAAAAACG
10393719 ATTAAAAA-GAATTAAGA
1 ATTAAAAATGAATTAAGA
10393736 ATTAAAAATG-ATTAAAAAGA
1 ATTAAAAATGAATT---AAGA
* *
10393756 ATTAAAAATTAA-AAATG-
1 ATTAAAAATGAATTAA-GA
10393773 ATTAAAAA-GAATTAAGA
1 ATTAAAAATGAATTAAGA
10393790 ATTAAA
1 ATTAAA
10393796 TTCTAAAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
16 3 0.06
17 29 0.60
18 2 0.04
20 13 0.27
21 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATTAAAAATGAATTAAGA
Found at i:10394055 original size:15 final size:15
Alignment explanation
Indices: 10394019--10394056 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
10394009 ATCTTCTTCG
*
10394019 TTTCACCCCCACCCA
1 TTTCACTCCCACCCA
10394034 TTTCACTCCCACCCA
1 TTTCACTCCCACCCA
10394049 TTTCACTC
1 TTTCACTC
10394057 TTCTTTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.18, C:0.53, G:0.00, T:0.29
Consensus pattern (15 bp):
TTTCACTCCCACCCA
Found at i:10394828 original size:14 final size:15
Alignment explanation
Indices: 10394809--10394842 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10394799 GTTAGATTGT
10394809 AAAAATAAG-AATAA
1 AAAAATAAGAAATAA
*
10394823 AAAAATATGAAATAA
1 AAAAATAAGAAATAA
10394838 AAAAA
1 AAAAA
10394843 ATTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAAATAAGAAATAA
Found at i:10394851 original size:16 final size:17
Alignment explanation
Indices: 10394819--10394857 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10394809 AAAAATAAGA
*
10394819 ATAAAAAAATATGAAAT
1 ATAAAAAAATATAAAAT
*
10394836 A-AAAAAAATTTAAAAT
1 ATAAAAAAATATAAAAT
10394852 ATAAAA
1 ATAAAA
10394858 TCAAGTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
ATAAAAAAATATAAAAT
Found at i:10394989 original size:29 final size:29
Alignment explanation
Indices: 10394961--10395017 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
10394951 AAAAGAAAAT
10394961 TGTT-AATTTTCAAAG-AGAAAAAAATAAA
1 TGTTAAATTTTCAAAGTA-AAAAAAATAAA
*
10394989 TGTTAAATTTTGAAAGTAAAAAAAATAAA
1 TGTTAAATTTTCAAAGTAAAAAAAATAAA
10395018 AAGTTAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 21 0.81
30 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.30
Consensus pattern (29 bp):
TGTTAAATTTTCAAAGTAAAAAAAATAAA
Found at i:10395024 original size:30 final size:29
Alignment explanation
Indices: 10394965--10395024 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
10394955 GAAAATTGTT
*
10394965 AATTTTCAAAGAGAAAAAAATAAATGTTA
1 AATTTTCAAAGAGAAAAAAATAAAAGTTA
*
10394994 AATTTTGAAAGTA-AAAAAAATAAAAAGTTA
1 AATTTTCAAAG-AGAAAAAAAT-AAAAGTTA
10395024 A
1 A
10395025 GAAAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.27
Consensus pattern (29 bp):
AATTTTCAAAGAGAAAAAAATAAAAGTTA
Found at i:10395029 original size:16 final size:17
Alignment explanation
Indices: 10395009--10395051 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
10394999 TGAAAGTAAA
10395009 AAAAATAAAAAGTTAA-
1 AAAAATAAAAAGTTAAT
* *
10395025 GAAAAT-AAATGTTAAT
1 AAAAATAAAAAGTTAAT
10395041 AAAAATAAAAA
1 AAAAATAAAAA
10395052 AAATCCAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
15 8 0.38
16 10 0.48
17 3 0.14
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (17 bp):
AAAAATAAAAAGTTAAT
Found at i:10396760 original size:95 final size:96
Alignment explanation
Indices: 10396606--10396786 Score: 292
Period size: 95 Copynumber: 1.9 Consensus size: 96
10396596 ACACCATTGT
* * ** *
10396606 AAGGGTATCGATACCATGTAAACATCGAATCTAATTTTGGTATCGATACCTTAATGGGGTATCGG
1 AAGGGTATCAATACCATGTAAACATCGAAGCTAATTTTGGTATCGATACCGGAAGGGGGTATCGG
*
10396671 TACCATAGTATAGTAGTATCAATACTGTGGA
66 TACCATAGTATAGAAGTATCAATACTGTGGA
*
10396702 AAGGGTATCAATACCATG-AAACATTGAAGCTAATTTTGGTATCGATACCGGAAGGGGGTATCGG
1 AAGGGTATCAATACCATGTAAACATCGAAGCTAATTTTGGTATCGATACCGGAAGGGGGTATCGG
10396766 TACCATAGTATAGAAGTATCA
66 TACCATAGTATAGAAGTATCA
10396787 GTACCATAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 61 0.78
96 17 0.22
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (96 bp):
AAGGGTATCAATACCATGTAAACATCGAAGCTAATTTTGGTATCGATACCGGAAGGGGGTATCGG
TACCATAGTATAGAAGTATCAATACTGTGGA
Found at i:10396784 original size:22 final size:22
Alignment explanation
Indices: 10396759--10396812 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
10396749 CCGGAAGGGG
10396759 GTATCGGTACCATAGTATAGAA
1 GTATCGGTACCATAGTATAGAA
*
10396781 GTATCAGTACCATAGTATAGAA
1 GTATCGGTACCATAGTATAGAA
10396803 GTATCGGTAC
1 GTATCGGTAC
10396813 TAGGATAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (22 bp):
GTATCGGTACCATAGTATAGAA
Found at i:10397296 original size:47 final size:47
Alignment explanation
Indices: 10397223--10397545 Score: 495
Period size: 47 Copynumber: 6.9 Consensus size: 47
10397213 AAATCAAATT
10397223 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
* * *
10397270 CATAATTGAAAATGAATGAAATGATGCATTAAGGCAAGAACGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
* *
10397317 CATAATTGAAAATGCATGAAATGATGCATTAAGGCATGAACGAATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
* * *
10397364 CATAATTGAAAATGCATGAAAGGATGAATTAAGGCATGAACGGTTGT
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
* **
10397411 CATAATTGAAAATGCATGAAAGGATGTATTAAGGCATGAACAAAAT-C
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAC-GGATGC
* *
10397458 TATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATTC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
*
10397505 CATAATTGAAAATGCATGAAAATGATGCATTAAGGCATGAA
1 CATAATTGAAAATGCATG-AAAGGATGCATTAAGGCATGAA
10397546 AAGATGTCAT
Statistics
Matches: 251, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
46 2 0.01
47 227 0.90
48 22 0.09
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.24
Consensus pattern (47 bp):
CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
Found at i:10397597 original size:141 final size:140
Alignment explanation
Indices: 10397223--10397609 Score: 478
Period size: 141 Copynumber: 2.7 Consensus size: 140
10397213 AAATCAAATT
*
10397223 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGCCATAATTGAAAATGAATG
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGTCATAATTGAAAATGAATG
* * * *
10397288 AAAT-GATGCATTAAGGCAAGAACGGATGCCATAATTGAAAATGCATGAAATGATGCATTAAGGC
66 AAATGGATGTATTAAGGCATGAA--AATGCCATAATTGAAAATGCATGAAAGGATGCATTAAGGC
10397352 ATGAACGAATGC
129 ATGAACGAATGC
* * *
10397364 CATAATTGAAAATGCATGAAAGGATGAATTAAGGCATGAACGGTTGTCATAATTGAAAATGCATG
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGTCATAATTGAAAATGAATG
*
10397429 AAA-GGATGTATTAAGGCATGAACAAAAT-CTATAATTGAAAATGCATGAAAGGATGCATTAAGG
66 AAATGGATGTATTAAGGCATG---AAAATGCCATAATTGAAAATGCATGAAAGGATGCATTAAGG
* *
10397492 CATGAACGGATTC
128 CATGAACGAATGC
* **
10397505 CATAATTGAAAATGCATGAAAATGATGCATTAAGGCATGAAAAGATGTCATGTATATT-AAAATG
1 CATAATTGAAAATGCATG-AAAGGATGCATTAAGGCATGAACGGATGTCA--TA-ATTGAAAATG
* ** * *
10397569 AAT-AAATGGATGTGTTAATACGTGAAAATAGACATAATTGA
62 AATGAAATGGATGTATTAAGGCATGAAAAT-GCCATAATTGA
10397610 GTTTAATGAG
Statistics
Matches: 212, Mismatches: 23, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
141 145 0.68
142 28 0.13
143 11 0.05
144 25 0.12
145 3 0.01
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (140 bp):
CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGTCATAATTGAAAATGAATG
AAATGGATGTATTAAGGCATGAAAATGCCATAATTGAAAATGCATGAAAGGATGCATTAAGGCAT
GAACGAATGC
Found at i:10409795 original size:37 final size:37
Alignment explanation
Indices: 10409740--10409843 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
10409730 CTTTTCGTCC
* *
10409740 TACTGGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
* *
10409777 TTCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
** * *
10409814 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
10409844 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
Found at i:10410297 original size:22 final size:24
Alignment explanation
Indices: 10410263--10410309 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
10410253 TATATATATA
10410263 TATTTAATTATATTTTATTT-ATT
1 TATTTAATTATATTTTATTTCATT
*
10410286 TATTT-ATTATATTTTTTTTCATT
1 TATTTAATTATATTTTATTTCATT
10410309 T
1 T
10410310 TTCTTTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TATTTAATTATATTTTATTTCATT
Found at i:10410351 original size:2 final size:2
Alignment explanation
Indices: 10410344--10410374 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10410334 TTCCTATTAT
10410344 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 T
10410375 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10410415 original size:12 final size:12
Alignment explanation
Indices: 10410398--10410422 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10410388 TGTTGACTTA
10410398 TTTACTATATTT
1 TTTACTATATTT
10410410 TTTACTATATTT
1 TTTACTATATTT
10410422 T
1 T
10410423 CCTAACGTTA
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTACTATATTT
Found at i:10410585 original size:22 final size:20
Alignment explanation
Indices: 10410560--10410603 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
10410550 TTTTATTATA
10410560 TTATACATACATTTTTATATTT
1 TTATACATA-ATTTTTA-ATTT
* *
10410582 TTATATATATTTTTTAATTT
1 TTATACATAATTTTTAATTT
10410602 TT
1 TT
10410604 TATTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 6 0.30
22 8 0.40
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATACATAATTTTTAATTT
Found at i:10410603 original size:29 final size:29
Alignment explanation
Indices: 10410570--10410631 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
10410560 TTATACATAC
*
10410570 ATTTTTATATTTT-TATATA-TATTT-TTT
1 ATTTTT-TATTTTATTTATACTATTTATTT
10410597 AATTTTTTATTTTATTTATACTATTTATTT
1 -ATTTTTTATTTTATTTATACTATTTATTT
10410627 ATTTT
1 ATTTT
10410632 CATTATGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.20
28 11 0.37
29 10 0.33
30 3 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.73
Consensus pattern (29 bp):
ATTTTTTATTTTATTTATACTATTTATTT
Found at i:10410752 original size:19 final size:17
Alignment explanation
Indices: 10410716--10410764 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 17
10410706 TTTTTGTATA
*
10410716 TATTTTTTTTCTTCATT
1 TATTTTTTTTATTCATT
10410733 TATTTTATTTTATTCGATT
1 TATTTT-TTTTATTC-ATT
10410752 TCATTTTTTTTAT
1 T-ATTTTTTTTAT
10410765 ATATGTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 7 0.25
19 10 0.36
20 5 0.18
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.73
Consensus pattern (17 bp):
TATTTTTTTTATTCATT
Found at i:10411946 original size:19 final size:19
Alignment explanation
Indices: 10411922--10411958 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10411912 ACCTTACTAA
10411922 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
10411941 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
10411959 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:10415154 original size:16 final size:15
Alignment explanation
Indices: 10415131--10415177 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
10415121 AAAAAGGGTA
10415131 AAAACAAAAAAGAA-
1 AAAACAAAAAAGAAG
10415145 AAGAAGCAAAAAAGAAG
1 AA-AA-CAAAAAAGAAG
10415162 AAAACAAAAAA-AAG
1 AAAACAAAAAAGAAG
10415176 AA
1 AA
10415178 CAAAAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.23
15 9 0.30
16 12 0.40
17 2 0.07
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAGAAG
Found at i:10415183 original size:18 final size:18
Alignment explanation
Indices: 10415152--10415190 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10415142 GAAAAGAAGC
*
10415152 AAAAAAGAAGAAAA-CAA
1 AAAAAAGAAAAAAATCAA
10415169 AAAAAAGAACAAAAATCAA
1 AAAAAAGAA-AAAAATCAA
10415188 AAA
1 AAA
10415191 GAAAAATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAAAATCAA
Found at i:10416925 original size:106 final size:106
Alignment explanation
Indices: 10416808--10418061 Score: 1871
Period size: 106 Copynumber: 11.9 Consensus size: 106
10416798 CGAGACAATA
*
10416808 CAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCC
1 CAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCC
10416872 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
65 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
10416914 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * *
10416979 ATTTCAACTTCACAACGAAGGATATTAGACTTCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
10417020 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
10417085 ATTTCAACTTTACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
10417126 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAAAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * *
10417191 ATTTCAACTTCACAGCGTAGGATATTGGAATCAAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
10417232 CAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
10417297 ATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
10417338 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
10417403 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
10417444 CAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
10417509 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAAACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * *
10417550 TAAGTTCAACTTCACGACGAAGGGACCGATGATTGTCAATAAAAAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
10417615 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
10417656 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
10417721 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
10417762 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * *
10417827 ATTTCAACTTCTCAACGAAGGATCTTGGAC-CCAAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACG
* * * * *
10417868 CAAGCTCAACTTCACGACGAATGGG-CGGCTGATTGTCAAC-AA-AA-TT-TC-A-TTCAGAGTC
1 CAAGTTCAACTTCACGACGAA-GGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCC
* ** * *
10417926 AATTTCAACTTCACAGCGAATGATATTGGACTTGAGATAACA
65 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * ** * * ** *
10417968 CAAGTTCAACTTCACAAAGAAGGGATGGCTGGTTGTCAACAAATAATTTCCCGGTTCCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
10418033 ATTTCAACTTCAC-GACGGAGGATATTGGA
66 ATTTCAACTTCACAG-CGAAGGATATTGGA
10418062 ATCAGAACAA
Statistics
Matches: 1052, Mismatches: 84, Indels: 24
0.91 0.07 0.02
Matches are distributed among these distances:
99 3 0.00
100 73 0.07
101 3 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 5 0.00
106 953 0.91
107 5 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:10418904 original size:37 final size:37
Alignment explanation
Indices: 10418815--10418918 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
10418805 CTTTTCGTCC
* *
10418815 TACTGGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
* * *
10418852 TGCTAGGATTCAAACTCCAAAAAATAGGATAGAGTTA
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
** * *
10418889 TACTATTATTTAAACTCCTAAATATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
10418919 CCACAAGCAT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTA
Found at i:10419328 original size:2 final size:2
Alignment explanation
Indices: 10419321--10419352 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10419311 ATTATTTATG
10419321 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10419353 TTTTTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10419360 original size:14 final size:14
Alignment explanation
Indices: 10419343--10419382 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
10419333 TATATATATA
10419343 TATATTATATTTTT
1 TATATTATATTTTT
*
10419357 TATATT-TATTTAT
1 TATATTATATTTTT
10419370 T-TATTAT-TTTTT
1 TATATTATATTTTT
10419382 T
1 T
10419383 TCATTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 9 0.39
13 8 0.35
14 6 0.26
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TATATTATATTTTT
Found at i:10419361 original size:26 final size:26
Alignment explanation
Indices: 10419331--10419383 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10419321 TATATATATA
10419331 TATATATATATATATATTATATTTTT
1 TATATATATATATATATTATATTTTT
* * * *
10419357 TATATTTATTTATTTATTATTTTTTT
1 TATATATATATATATATTATATTTTT
10419383 T
1 T
10419384 CATTTTCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (26 bp):
TATATATATATATATATTATATTTTT
Found at i:10419377 original size:24 final size:24
Alignment explanation
Indices: 10419333--10419381 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10419323 TATATATATA
10419333 TATATATATATATATTATATTTTT
1 TATATATATATATATTATATTTTT
* *
10419357 TATATTTATTTAT-TTATTATTTTT
1 TATATATATATATATTA-TATTTTT
10419381 T
1 T
10419382 TTCATTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (24 bp):
TATATATATATATATTATATTTTT
Found at i:10419432 original size:2 final size:2
Alignment explanation
Indices: 10419425--10419451 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10419415 CTATTATTAT
10419425 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 T
10419452 TATTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10419492 original size:13 final size:13
Alignment explanation
Indices: 10419474--10419501 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10419464 CTATGTTTAC
10419474 TTTTTACTATATT
1 TTTTTACTATATT
10419487 TTTTTACTATATT
1 TTTTTACTATATT
10419500 TT
1 TT
10419502 CCTAACGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTACTATATT
Found at i:10419676 original size:26 final size:26
Alignment explanation
Indices: 10419647--10419702 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
10419637 TTATACATAC
*
10419647 ATTTTTATATTTTTATATATA-TTTTT
1 ATTTTTATA-TTTTATATATACTATTT
* *
10419673 ATTTTTTTATTTTATTTATACTATTT
1 ATTTTTATATTTTATATATACTATTT
10419699 ATTT
1 ATTT
10419703 ATTTTCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (26 bp):
ATTTTTATATTTTATATATACTATTT
Found at i:10419793 original size:25 final size:26
Alignment explanation
Indices: 10419771--10419822 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
10419761 ACACTTTACT
10419771 TTTTTTATTC-TTT-TTTGTATTTATA
1 TTTTTTATTCATTTATTT-TATTTATA
*
10419796 TTTTTTCTTCATTTATTTTATTT-TA
1 TTTTTTATTCATTTATTTTATTTATA
10419821 TT
1 TT
10419823 CAATTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 13 0.54
26 8 0.33
27 3 0.12
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (26 bp):
TTTTTTATTCATTTATTTTATTTATA
Found at i:10419842 original size:20 final size:19
Alignment explanation
Indices: 10419789--10419834 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
10419779 TCTTTTTTGT
* *
10419789 ATTTATATT-TTTTCTTC-
1 ATTTATTTTATTTTATTCA
10419806 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
10419825 ATTTCATTTT
1 ATTT-ATTTT
10419835 TTTATATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 4 0.17
20 5 0.21
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:10422054 original size:94 final size:96
Alignment explanation
Indices: 10421890--10422075 Score: 243
Period size: 95 Copynumber: 2.0 Consensus size: 96
10421880 TTGAGGCAGC
* * * * * *
10421890 ATCGATACCATTGTAAGGGTATCGATATCATGCAAACATATAATCTAATTTTGGTATCGATACCT
1 ATCGATACCAGTGTAAGGGTATCGATACCATGCAAACATAGAAGCTAATTTCGGTATCGATACCG
* *
10421955 TAA-GGGGTATCGGTACCGTAGTATAGTATT
66 GAAGGGGGTATCGGTACCATAGTATAGTATT
* * *
10421985 ATCGATACC-GTGATAAGGGTATCGATACCATG-AAACATCGAAGCTAATTTCGGTATCGCTATC
1 ATCGATACCAGTG-TAAGGGTATCGATACCATGCAAACATAGAAGCTAATTTCGGTATCGATACC
10422048 GGAAGGGGGTATCGGTACCATAGTATAG
65 GGAAGGGGGTATCGGTACCATAGTATAG
10422076 AAGTATCAGT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
94 29 0.37
95 49 0.63
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (96 bp):
ATCGATACCAGTGTAAGGGTATCGATACCATGCAAACATAGAAGCTAATTTCGGTATCGATACCG
GAAGGGGGTATCGGTACCATAGTATAGTATT
Found at i:10422577 original size:47 final size:47
Alignment explanation
Indices: 10422504--10422787 Score: 417
Period size: 47 Copynumber: 6.0 Consensus size: 47
10422494 AAATCAAATT
*
10422504 CATAATTGAAAGTGCATGAAAGGATGCATTAAGGCATGAACAGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
* * * * *
10422551 CATAATTGAAAATGCATGAAATGATGCATTAAGGGAAGAACGGATAC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
* * *
10422598 CATAATTGAAAATGCATGAGAGGATGCATTAAGGTATGAACTGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
* *
10422645 CATAATTGAAAATGCATGAAAGAATGCATTAAGGCATGAACGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
*
10422692 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAC-GAATGT
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAG-ATGC
* *
10422739 CATAATTGAAAATGCATGAAAATGATGCATTAAGGCATGAAAAGATGC
1 CATAATTGAAAATGCATG-AAAGGATGCATTAAGGCATGAACAGATGC
10422787 C
1 C
10422788 TTGTATATTA
Statistics
Matches: 213, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
46 1 0.00
47 186 0.87
48 25 0.12
49 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.23
Consensus pattern (47 bp):
CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
Found at i:10422671 original size:27 final size:26
Alignment explanation
Indices: 10422645--10422759 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 26
10422635 GAACTGATGC
10422645 CATAATTGAAAATGCATGAAAGAATG
1 CATAATTGAAAATGCATGAAAGAATG
* * *
10422671 C---ATT---AAGGCATGAACGGATG
1 CATAATTGAAAATGCATGAAAGAATG
*
10422691 CCATAATTGAAAATGCATGAAAGGATG
1 -CATAATTGAAAATGCATGAAAGAATG
* *
10422718 C---ATT---AAGGCATGAACGAATG
1 CATAATTGAAAATGCATGAAAGAATG
10422738 TCATAATTGAAAATGCATGAAA
1 -CATAATTGAAAATGCATGAAA
10422760 ATGATGCATT
Statistics
Matches: 65, Mismatches: 10, Indels: 27
0.64 0.10 0.26
Matches are distributed among these distances:
20 26 0.40
21 2 0.03
23 6 0.09
24 6 0.09
26 2 0.03
27 23 0.35
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (26 bp):
CATAATTGAAAATGCATGAAAGAATG
Found at i:10423928 original size:30 final size:29
Alignment explanation
Indices: 10423872--10423930 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
10423862 TATTTCAAAA
* * *
10423872 ATGTTTTCAAAAAACTATATATTATATAT
1 ATGTTTTCAAAAAAATATAAACTATATAT
*
10423901 ATGTTTTCAAAAAAAATTTAAACTATATAT
1 ATGTTTTC-AAAAAAATATAAACTATATAT
10423931 TAAATACATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (29 bp):
ATGTTTTCAAAAAAATATAAACTATATAT
Found at i:10424087 original size:2 final size:2
Alignment explanation
Indices: 10424076--10424121 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
10424066 TTTCAAAAAC
10424076 TA TA TA -A TA TA 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 TA TA TA TA TA TA
10424117 TA TA T
1 TA TA T
10424122 TTTCAAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10424088 original size:40 final size:40
Alignment explanation
Indices: 10423760--10424233 Score: 314
Period size: 38 Copynumber: 12.8 Consensus size: 40
10423750 AATATTATAT
* * * * *
10423760 AAAAAAGTTTTCAAAATC-ATATATTATATATATTTTTTT
1 AAAAATGTTTTCAAAAACTATATAATATATATATATTTTC
*
10423799 AAAAATGTATTT--AAAAC--TAT-AT-TATATATACTTTC
1 AAAAATGT-TTTCAAAAACTATATAATATATATATATTTTC
*
10423834 AAAAACGTTTTC-AAAAC--TAT-AT-TATATATA-TTTC
1 AAAAATGTTTTCAAAAACTATATAATATATATATATTTTC
* *
10423868 AAAAATGTTTTCAAAAAACTATATATTATATATATGTTTTC
1 AAAAATGTTTTC-AAAAACTATATAATATATATATATTTTC
*** * * * *
10423909 AAAAAAAATTT---AAACTATATATTAAATACATAATTTTT
1 AAAAATGTTTTCAAAAACTATATAATATATATAT-ATTTTC
10423947 AAAAATGTTTTC-AAAAC--TAT-ATA-ATATATATTTT-
1 AAAAATGTTTTCAAAAACTATATAATATATATATATTTTC
* *
10423981 AAAAATGTTTTC-AAAACTATATATTATATATATATATTC
1 AAAAATGTTTTCAAAAACTATATAATATATATATATTTTC
10424020 AAAAATGTTTTCAAAAACTATAT-A-ATATATATATTTTC
1 AAAAATGTTTTCAAAAACTATATAATATATATATATTTTC
10424058 AAAAATGTTTTCAAAAACTATATAATATATATATA---T-
1 AAAAATGTTTTCAAAAACTATATAATATATATATATTTTC
* * * *
10424094 ----AT-ATAT-ATATA-TATAT-ATATATATATATTTTC
1 AAAAATGTTTTCAAAAACTATATAATATATATATATTTTC
*
10424126 AAAAATATTTTCAAAAACTATATAATATATAT-T-TTTTC
1 AAAAATGTTTTCAAAAACTATATAATATATATATATTTTC
* * * **
10424164 AAAAACTGATTTTTAAAAA--GTAT-GTAT-TATATGCTTTC
1 AAAAA-TG-TTTTCAAAAACTATATAATATATATATATTTTC
* *
10424202 AAAAACCGTTTTCTAAAAACTATATATTATAT
1 AAAAA-TGTTTTC-AAAAACTATATAATATAT
10424234 TTCAAAAATA
Statistics
Matches: 351, Mismatches: 43, Indels: 79
0.74 0.09 0.17
Matches are distributed among these distances:
28 11 0.03
29 5 0.01
30 3 0.01
31 3 0.01
32 2 0.01
34 35 0.10
35 40 0.11
36 19 0.05
37 36 0.10
38 100 0.28
39 28 0.08
40 53 0.15
41 15 0.04
42 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (40 bp):
AAAAATGTTTTCAAAAACTATATAATATATATATATTTTC
Found at i:10424133 original size:12 final size:12
Alignment explanation
Indices: 10424118--10424142 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10424108 ATATATATAT
10424118 ATATTTTCAAAA
1 ATATTTTCAAAA
10424130 ATATTTTCAAAA
1 ATATTTTCAAAA
10424142 A
1 A
10424143 CTATATAATA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:10424163 original size:38 final size:38
Alignment explanation
Indices: 10424105--10424253 Score: 123
Period size: 38 Copynumber: 4.0 Consensus size: 38
10424095 TATATATATA
*
10424105 TATATATATATATATATTTTCAAAAATATTTTCAAAAAC
1 TATATA-ATATATATATTTTCAAAAATGTTTTCAAAAAC
* * *
10424144 TATATAATATATATTTTTTCAAAAACTGATTTTTAAAAAG
1 TATATAATATATATATTTTCAAAAA-TG-TTTTCAAAAAC
* ** *
10424184 TATGT-AT-TATATGCTTTCAAAAACCGTTTTCTAAAAAC
1 TATATAATATATATATTTTCAAAAA-TGTTTTC-AAAAAC
*
10424222 --TAT-ATAT-TATA-TTTCAAAAATATTTTCAAAAA
1 TATATAATATATATATTTTCAAAAATGTTTTCAAAAA
10424254 TAAGCTCCGG
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
33 5 0.05
34 5 0.05
35 9 0.10
36 7 0.08
37 5 0.05
38 39 0.42
39 9 0.10
40 13 0.14
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (38 bp):
TATATAATATATATATTTTCAAAAATGTTTTCAAAAAC
Found at i:10426447 original size:11 final size:11
Alignment explanation
Indices: 10426431--10426456 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10426421 AGCAAATAAA
10426431 ACATAATAATT
1 ACATAATAATT
10426442 ACATAATAATT
1 ACATAATAATT
10426453 ACAT
1 ACAT
10426457 GCCACTAATT
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:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (11 bp):
ACATAATAATT
Found at i:10433965 original size:11 final size:11
Alignment explanation
Indices: 10433949--10433974 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10433939 AGCAAATAAA
10433949 ACATAATAATT
1 ACATAATAATT
10433960 ACATAATAATT
1 ACATAATAATT
10433971 ACAT
1 ACAT
10433975 GCCACTAATT
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:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (11 bp):
ACATAATAATT
Found at i:10444801 original size:21 final size:21
Alignment explanation
Indices: 10444727--10444794 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
10444717 CCGAGGGTAG
*
10444727 AGTATCGATACTCCAAAAAGA
1 AGTATCAATACTCCAAAAAGA
10444748 AGTATCAATACTCCAAAAAGA
1 AGTATCAATACTCCAAAAAGA
*
10444769 AGTATCAATACTCCAAAAATA
1 AGTATCAATACTCCAAAAAGA
10444790 AGTAT
1 AGTAT
10444795 TGATACTGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.22
Consensus pattern (21 bp):
AGTATCAATACTCCAAAAAGA
Found at i:10444944 original size:20 final size:19
Alignment explanation
Indices: 10444919--10444956 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10444909 AATTTTTCGT
*
10444919 TTAGTATTGATACTCAAGGA
1 TTAGTATAGATAC-CAAGGA
10444939 TTAGTATAGATACCAAGG
1 TTAGTATAGATACCAAGG
10444957 GGCTCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
TTAGTATAGATACCAAGGA
Found at i:10450732 original size:36 final size:37
Alignment explanation
Indices: 10450597--10450846 Score: 250
Period size: 38 Copynumber: 6.8 Consensus size: 37
10450587 ATATTATATA
* *
10450597 AAAATGTTTTCAAAATC-ATATATTATATATATTTTTTA
1 AAAATGTTTTCAAAAACTATATA-TATATATA-TTTTTC
* * **
10450635 AAAATATTTT--AAAACTATAT-TATATATACTTTAA
1 AAAATGTTTTCAAAAACTATATATATATATATTTTTC
** *
10450669 AAAACATTTTC-AAAACTATAT-TATATATA-TTTCC
1 AAAATGTTTTCAAAAACTATATATATATATATTTTTC
10450703 AAAATGTTTTCAAAAAACTATATATTATATATATGTTTTC
1 AAAATGTTTTC-AAAAACTATATA-TATATATAT-TTTTC
* *
10450743 AAAATGTTTT-TAAAACTATATAT-TATATATATTTC
1 AAAATGTTTTCAAAAACTATATATATATATATTTTTC
**
10450778 ATAAATGTTTTCAAAAACTATATAATATATATATTTTAA
1 A-AAATGTTTTCAAAAACTATAT-ATATATATATTTTTC
10450817 AAAATGTTTTCAAAAACTATA-ATATATATA
1 AAAATGTTTTCAAAAACTATATATATATATA
10450847 ATATATATAT
Statistics
Matches: 184, Mismatches: 16, Indels: 26
0.81 0.07 0.12
Matches are distributed among these distances:
34 25 0.14
35 31 0.17
36 39 0.21
37 15 0.08
38 50 0.27
39 10 0.05
40 14 0.08
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (37 bp):
AAAATGTTTTCAAAAACTATATATATATATATTTTTC
Found at i:10450845 original size:2 final size:2
Alignment explanation
Indices: 10450834--10450902 Score: 124
Period size: 2 Copynumber: 35.5 Consensus size: 2
10450824 TTTCAAAAAC
10450834 TA TA -A TA TA TA TA -A 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 TA TA TA TA TA TA
10450874 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 T
10450903 TCAAAAACTG
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 63 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10450946 original size:37 final size:35
Alignment explanation
Indices: 10450888--10450992 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 35
10450878 TATATATATA
10450888 TATATATATATATATTCAAAAACTGATTTTTAAAAAG
1 TATATAT-TATAT-TTCAAAAACTGATTTTTAAAAAG
* * * *
10450925 TATGTATTATATGGTTTAAAAACCG-TTTTCTAAAAAT
1 TATATATTATAT--TTCAAAAACTGATTTT-TAAAAAG
10450962 TATATATTATATTTCAAAAA-T-ATTTTTAAAA
1 TATATATTATATTTCAAAAACTGATTTTTAAAA
10450993 CTAAGCTCCG
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
33 5 0.09
34 4 0.07
35 7 0.12
36 9 0.16
37 32 0.56
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (35 bp):
TATATATTATATTTCAAAAACTGATTTTTAAAAAG
Found at i:10451502 original size:85 final size:85
Alignment explanation
Indices: 10451392--10451712 Score: 435
Period size: 85 Copynumber: 3.8 Consensus size: 85
10451382 GCTTCCAATT
* ** * * *
10451392 TGAATGGAATCGAACTCGAAAGTTTTTGTTGACAGATAGCTTTTCTCGACTTAAGTTATGTTGTA
1 TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTA
*
10451457 AATTTGATATGACCTTGAGC
66 AATTTGATATGCCCTTGAGC
* * **
10451477 TGAATGGAATCGAACTTGAAGGTTTTTGTTGACAGATAGCCCTTCTCTCCTTGAGCTATGTTGCG
1 TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTA
* *
10451542 AATTTGATATTCCCTTGAGG
66 AATTTGATATGCCCTTGAGC
** * * * * *
10451562 TGAATGGAATATAACTTGAATGTTTTTGTTGACAAATAACCCTTCTCGCCTTGAGCTATGATGTA
1 TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTA
10451627 AATTTGATATGCCCTTGAGC
66 AATTTGATATGCCCTTGAGC
* * *
10451647 TGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCACCTTGAACTATGTTGTA
1 TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTA
10451712 A
66 A
10451713 TAGGCTGGGA
Statistics
Matches: 203, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 203 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (85 bp):
TGAATGGAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGTTGTA
AATTTGATATGCCCTTGAGC
Found at i:10451674 original size:170 final size:170
Alignment explanation
Indices: 10451392--10451709 Score: 483
Period size: 170 Copynumber: 1.9 Consensus size: 170
10451382 GCTTCCAATT
* * * ** * *
10451392 TGAATGGAATCGAACTCGAAAGTTTTTGTTGACAGATAGCTTTTCTCGACTTAAGTTATGTTGTA
1 TGAATGGAATAGAACTCGAAAGTTTTTGTTGACAAATAACCCTTCTCGACTTAAGCTATGATGTA
* *
10451457 AATTTGATATGACCTTGAGCTGAATGGAATCGAACTTGAAGGTTTTTGTTGACAGATAGCCCTTC
66 AATTTGATATGACCTTGAGCTGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTC
* *
10451522 TCTCCTTGAGCTATGTTGCGAATTTGATATTCCCTTGAGG
131 TCACCTTGAACTATGTTGCGAATTTGATATTCCCTTGAGG
* * * * *
10451562 TGAATGGAATATAACTTGAATGTTTTTGTTGACAAATAACCCTTCTCGCCTTGAGCTATGATGTA
1 TGAATGGAATAGAACTCGAAAGTTTTTGTTGACAAATAACCCTTCTCGACTTAAGCTATGATGTA
*
10451627 AATTTGATATGCCCTTGAGCTGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTC
66 AATTTGATATGACCTTGAGCTGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTC
10451692 TCACCTTGAACTATGTTG
131 TCACCTTGAACTATGTTG
10451710 TAATAGGCTG
Statistics
Matches: 131, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
170 131 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (170 bp):
TGAATGGAATAGAACTCGAAAGTTTTTGTTGACAAATAACCCTTCTCGACTTAAGCTATGATGTA
AATTTGATATGACCTTGAGCTGAATGGAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTC
TCACCTTGAACTATGTTGCGAATTTGATATTCCCTTGAGG
Found at i:10457819 original size:12 final size:12
Alignment explanation
Indices: 10457779--10457822 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 12
10457769 GTTATATTGT
10457779 AAAAATAAGAATA
1 AAAAATAA-AATA
10457792 AATAAATATGAAATA
1 AA-AAATA--AAATA
10457807 AAAAATAAAATA
1 AAAAATAAAATA
10457819 AAAA
1 AAAA
10457823 GTTTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 9 0.32
13 2 0.07
14 10 0.36
15 6 0.21
16 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:10457878 original size:17 final size:17
Alignment explanation
Indices: 10457858--10457890 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10457848 AGTTTAAAGA
10457858 AAAAAATGAAGAAAATG
1 AAAAAATGAAGAAAATG
10457875 AAAAAATGAAGAAAAT
1 AAAAAATGAAGAAAAT
10457891 AAATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (17 bp):
AAAAAATGAAGAAAATG
Found at i:10457882 original size:8 final size:9
Alignment explanation
Indices: 10457860--10457890 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
10457850 TTTAAAGAAA
10457860 AAAATGAAG
1 AAAATGAAG
10457869 AAAATGAA-
1 AAAATGAAG
10457877 AAAATGAAG
1 AAAATGAAG
10457886 AAAAT
1 AAAAT
10457891 AAATTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (9 bp):
AAAATGAAG
Found at i:10458649 original size:64 final size:64
Alignment explanation
Indices: 10458571--10458699 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
10458561 ACCTACCCCT
10458571 AATTATGTAAATCTAAGCGTAAAGTTTTGATTTTTAGCCTTAAAATCGTCATCTCTTGAGTTCC
1 AATTATGTAAATCTAAGCGTAAAGTTTTGATTTTTAGCCTTAAAATCGTCATCTCTTGAGTTCC
10458635 AATTATGTAAATCTAAGCGTAAAGTTTTGATTTTTAGCCTTAAAATCGTCATCTCTTGAGTTCC
1 AATTATGTAAATCTAAGCGTAAAGTTTTGATTTTTAGCCTTAAAATCGTCATCTCTTGAGTTCC
10458699 A
1 A
10458700 GCGACTCTTC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (64 bp):
AATTATGTAAATCTAAGCGTAAAGTTTTGATTTTTAGCCTTAAAATCGTCATCTCTTGAGTTCC
Done.