Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 391 of 438
Found at i:121977093 original size:11 final size:10
Alignment explanation
Indices: 121977061--121977115 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
121977051 CATGAGATTT
121977061 TGATAT-ACA
1 TGATATGACA
*
121977070 TGATTTGACA
1 TGATATGACA
121977080 TGATATGCACA
1 TGATATG-ACA
*
121977091 TGATATG-TA
1 TGATATGACA
121977100 TGATATGCACA
1 TGATATG-ACA
121977111 TGATA
1 TGATA
121977116 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:121977197 original size:25 final size:25
Alignment explanation
Indices: 121977163--121977232 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
121977153 GAGGAAGTGC
*
121977163 AAAAGGGCTTTGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
121977188 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
121977213 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
121977233 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:121977493 original size:31 final size:31
Alignment explanation
Indices: 121977452--121977535 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
121977442 TTGTTACAGT
*
121977452 AAAGGTTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
121977483 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
121977514 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
121977536 CTGAGATTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:121980546 original size:29 final size:29
Alignment explanation
Indices: 121980504--121980569 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
121980494 ATTTGTAGGG
*
121980504 TAAGTTATTTATGTGTAAATTATGGTAAA
1 TAAGTCATTTATGTGTAAATTATGGTAAA
121980533 TAAGTCATTTATGTGTAAATTATGGTAAA
1 TAAGTCATTTATGTGTAAATTATGGTAAA
121980562 TAAGTCAT
1 TAAGTCAT
121980570 ATTGTTTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (29 bp):
TAAGTCATTTATGTGTAAATTATGGTAAA
Found at i:121984674 original size:17 final size:17
Alignment explanation
Indices: 121984652--121984685 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
121984642 GCCCAATCCA
121984652 ACCAACACAGCAC-CCAT
1 ACCAAC-CAGCACACCAT
121984669 ACCAACCAGCACACCAT
1 ACCAACCAGCACACCAT
121984686 GTGGGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.47, G:0.06, T:0.06
Consensus pattern (17 bp):
ACCAACCAGCACACCAT
Found at i:121986186 original size:93 final size:93
Alignment explanation
Indices: 121986074--121986244 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
121986064 GCCCATAAGT
* *
121986074 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
121986139 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
121986167 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
121986232 CGAGTTCGGATGC
66 CGAGTTCGGATGC
121986245 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:121986260 original size:46 final size:46
Alignment explanation
Indices: 121986066--121986246 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
121986056 TGTAACCCGC
* * *
121986066 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
121986112 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
121986162 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
121986205 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
121986247 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:121988674 original size:30 final size:30
Alignment explanation
Indices: 121988630--121988718 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
121988620 CAAAGATAAC
121988630 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
121988659 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
121988689 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
121988719 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:121988678 original size:15 final size:15
Alignment explanation
Indices: 121988630--121988709 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
121988620 CAAAGATAAC
*
121988630 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
121988644 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
121988659 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
121988674 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
121988689 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
121988704 AAGAAA
1 AAGAAA
121988710 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:121988718 original size:15 final size:15
Alignment explanation
Indices: 121988641--121988718 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
121988631 AGAAAACCGA
121988641 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
121988656 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
121988670 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
121988685 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
121988701 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
121988716 ATA
1 ATA
121988719 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:121991747 original size:93 final size:93
Alignment explanation
Indices: 121991635--121991805 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
121991625 GCCCATAAGT
* *
121991635 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
121991700 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
121991728 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
121991793 CGAGTTCGGATGC
66 CGAGTTCGGATGC
121991806 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:121991821 original size:46 final size:46
Alignment explanation
Indices: 121991627--121991807 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
121991617 TGTAACCCGC
* * *
121991627 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
121991673 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
121991723 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
121991766 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
121991808 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:121993392 original size:22 final size:22
Alignment explanation
Indices: 121993364--121993428 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
121993354 GCAAATACGT
*
121993364 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
121993386 TTGGCACAGAGCCATACGT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
*
121993408 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
121993429 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:121993731 original size:123 final size:123
Alignment explanation
Indices: 121993570--121993811 Score: 344
Period size: 123 Copynumber: 2.0 Consensus size: 123
121993560 TAAAAGCCAC
* *
121993570 CGGTGGATCCACGATAGTCAAGCAACCATGTGATCCTTAATCGATGGATCCAC-AGTCGTTAAGA
1 CGGTGGATCCACGATAGTCAAGCAACCATGAGATCCTTAATCGATGGATCCACGA-TCGTCAAGA
* * *
121993634 AACCATACGATCTTCAATCGATGGATCCACGATCATCAAGCCACCATGCGATCCTTAAT
65 AACCATACGAACCTCAATCGATGGATCCACGATCATCAAGCAACCATGCGATCCTTAAT
* * *
121993693 CGGTGGATCCACGGTTA-TCAAGCAACCATGAGATCCTTAATCGGTGGATCCACGATCGTCAAGC
1 CGGTGGATCCAC-GATAGTCAAGCAACCATGAGATCCTTAATCGATGGATCCACGATCGTCAAGA
* * * *
121993757 AACCATGCGAACCTCAATCGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCT
65 AACCATACGAACCTCAATCGATGGATCCACGATCATCAAGCAACCATGCGATCCT
121993812 CAATTTCTTC
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
123 101 0.96
124 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (123 bp):
CGGTGGATCCACGATAGTCAAGCAACCATGAGATCCTTAATCGATGGATCCACGATCGTCAAGAA
ACCATACGAACCTCAATCGATGGATCCACGATCATCAAGCAACCATGCGATCCTTAAT
Found at i:121993813 original size:41 final size:41
Alignment explanation
Indices: 121993570--121993815 Score: 305
Period size: 41 Copynumber: 6.0 Consensus size: 41
121993560 TAAAAGCCAC
* * *
121993570 CGGTGGATCCACGATAGTCAAGCAACCATGTGATCCTTAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
* * * * *
121993611 CGATGGATCCAC-AGTCGTTAAGAAACCATACGATCTTCAAT
1 CGGTGGATCCACGA-TCGTCAAGCAACCATGCGATCCTCAAT
* * * *
121993652 CGATGGATCCACGATCATCAAGCCACCATGCGATCCTTAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
* ** * *
121993693 CGGTGGATCCACGGTTATCAAGCAACCATGAGATCCTTAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
*
121993734 CGGTGGATCCACGATCGTCAAGCAACCATGCGAACCTCAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
*
121993775 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
121993816 TTCTTCCTCC
Statistics
Matches: 175, Mismatches: 28, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 173 0.99
42 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
Found at i:121994113 original size:27 final size:27
Alignment explanation
Indices: 121994072--121994441 Score: 220
Period size: 27 Copynumber: 13.7 Consensus size: 27
121994062 TTGGTAAATC
*
121994072 TACAAACCAAAGGTATTTCGATAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* * *
121994099 TGCAAACCAATGGTATTTCTATAATTTT
1 TACAAACCAAGGGTATTTCGATAA-TTT
** **
121994127 TA-AAAGTTAACAGTATTTCTG-TAATTT
1 TACAAA-CCAAGGGTATTTC-GATAATTT
* * * *
121994154 TATAAATCAGGGGTATTTCTATAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* * *
121994181 TCCAAATCAAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* * * *
121994208 TCCAAATCAAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* * *
121994235 TAAAAATCGAA-GGTATTTC-AGTCATTT
1 TACAAA-CCAAGGGTATTTCGA-TAATTT
* *
121994262 TA-AAATTCGAA-GGTATTTCGGTAATTT
1 TACAAA--CCAAGGGTATTTCGATAATTT
***
121994289 TACAGGTCAAGGGTATTTC-AGTAATTT
1 TACAAACCAAGGGTATTTCGA-TAATTT
* * * * *
121994316 CACAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* *
121994343 TACAAACC-AGAGGTATTTTGGTAATTT
1 TACAAACCAAG-GGTATTTCGATAATTT
* *
121994370 TACAAACCAAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
**
121994397 TGTAAACCAAGGGTA-TTC-AGTAATTT
1 TACAAACCAAGGGTATTTCGA-TAATTT
**
121994423 TGTAAACCAAGGGTATTTC
1 TACAAACCAAGGGTATTTC
121994442 AGTAATTCTA
Statistics
Matches: 279, Mismatches: 47, Indels: 34
0.77 0.13 0.09
Matches are distributed among these distances:
26 29 0.10
27 226 0.81
28 24 0.09
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCGATAATTT
Found at i:121994215 original size:54 final size:55
Alignment explanation
Indices: 121994054--121994441 Score: 300
Period size: 54 Copynumber: 7.2 Consensus size: 55
121994044 TCACCCTACG
* * * * * * *
121994054 AGGGTGTTT-TGGTAAATCTACAAACCAAAGGTATTTC-GATAATTTTGCAAACCA
1 AGGGTATTTCTGGTAATTTTACAAATCAAGGGTATTTCAG-TAATTTTACAAATCA
* * * ** * *
121994108 ATGGTATTTCT-ATAATTTTTA-AAAGTTAACAGTATTTCTGTAATTTTATAAATCA
1 AGGGTATTTCTGGTAA-TTTTACAAA-TCAAGGGTATTTCAGTAATTTTACAAATCA
* * * * *
121994163 GGGGTATTTCT-ATAATTTTCCAAATCAAGGGTATTTCGGTAATTTTCCAAATCA
1 AGGGTATTTCTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCA
* *
121994217 AGGGTATTT-TGGTAATTTTAAAAATCGAA-GGTATTTCAGTCATTTTA-AAATTCGA
1 AGGGTATTTCTGGTAATTTTACAAATC-AAGGGTATTTCAGTAATTTTACAAA-TC-A
** *
121994272 A-GGTATTTC-GGTAATTTTACAGGTCAAGGGTATTTCAGTAATTTCACAAATCA
1 AGGGTATTTCTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCA
* * ** *
121994325 GGGGTATTT-TGGTAATTTTACAAA-CCAGAGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTCTGGTAATTTTACAAATCAAG-GGTATTTCAGTAATTTTACAAATCA
** * ** *
121994379 AGGGTATTT-TGGTAATTTTGTAAACCAAGGGTA-TTCAGTAATTTTGTAAACCA
1 AGGGTATTTCTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCA
121994432 AGGGTATTTC
1 AGGGTATTTC
121994442 AGTAATTCTA
Statistics
Matches: 268, Mismatches: 49, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
53 35 0.13
54 181 0.68
55 51 0.19
56 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (55 bp):
AGGGTATTTCTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCA
Found at i:121994262 original size:81 final size:80
Alignment explanation
Indices: 121994054--121994448 Score: 286
Period size: 81 Copynumber: 4.9 Consensus size: 80
121994044 TCACCCTACG
* * * * * * * *
121994054 AGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTC-GATAATTTTGCAAACCAATGGTATTTC
1 AGGGTATTTTGGTAATTTTATAAATCAGAGGTATTTCAG-TAATTTT-CAAATCAAGGGTATTTC
** *
121994118 TATAATTTTTA-AAAGTTA
64 GGTAA-TTTTACAAA-TCA
** *
121994136 ACAGTATTTCT-GTAATTTTATAAATCAGGGGTATTTCTA-TAATTTTCCAAATCAAGGGTATTT
1 AGGGTATTT-TGGTAATTTTATAAATCAGAGGTATTTC-AGTAATTTT-CAAATCAAGGGTATTT
*
121994199 CGGTAATTTTCCAAATCA
63 CGGTAATTTTACAAATCA
* * *
121994217 AGGGTATTTTGGTAATTTTAAAAATC-GAAGGTATTTCAGTCATTTTAAAATTCGAA-GGTATTT
1 AGGGTATTTTGGTAATTTTATAAATCAG-AGGTATTTCAGTAATTTTCAAA-TC-AAGGGTATTT
**
121994280 CGGTAATTTTACAGGTCA
63 CGGTAATTTTACAAATCA
** * * * ** * *
121994298 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAA-CCAGAGGTATTTT
1 AGGGTATTTTGGTAATTTTATAAATCAGAGGTATTTCAGTAATTTT-CAAATCAAG-GGTATTTC
*
121994362 GGTAATTTTACAAACCA
64 GGTAATTTTACAAATCA
* * * *
121994379 AGGGTATTTTGGTAATTTTGTAAACCA-AGGGTA-TTCAGTAATTTTGTAAACCAAGGGTATTTC
1 AGGGTATTTTGGTAATTTTATAAATCAGA-GGTATTTCAGTAATTTT-CAAATCAAGGGTATTTC
*
121994442 AGTAATT
64 GGTAATT
121994449 CTACCCTACA
Statistics
Matches: 245, Mismatches: 53, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
79 1 0.00
80 33 0.13
81 150 0.61
82 60 0.24
83 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTATAAATCAGAGGTATTTCAGTAATTTTCAAATCAAGGGTATTTCGG
TAATTTTACAAATCA
Found at i:122001050 original size:27 final size:26
Alignment explanation
Indices: 122000992--122001125 Score: 142
Period size: 27 Copynumber: 5.0 Consensus size: 26
122000982 TGGTTGCCAA
* **
122000992 AACAGATAATGTGACAGAGTGACCAG
1 AACAGATAATGTGGCAGAGCCACCAG
122001018 ATACAGATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAAT-GTGGCAGAGCCACCAG
122001046 AACAGATATATGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* * *
122001073 ATCAGATATTTGTGGCAGAGCCACCTG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* * *
122001100 ATCAGATATTTGTGGCATAGCCACCA
1 AACAGATA-ATGTGGCAGAGCCACCA
122001126 AACGCTTCCT
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.01
27 80 0.82
28 16 0.16
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAG
Found at i:122001088 original size:54 final size:55
Alignment explanation
Indices: 122000992--122001125 Score: 173
Period size: 54 Copynumber: 2.5 Consensus size: 55
122000982 TGGTTGCCAA
* **
122000992 AACAGATA-ATGTGACAGAGTGACCAGATACAGATAATCGTGGCAGAGCCACCAG
1 AACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
* * *
122001046 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACCTG
1 AACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
* * *
122001100 ATCAGATATTTGTGGCATAGCCACCA
1 AACAGATATATGTGGCAGAGCCACCA
122001126 AACGCTTCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 53 0.76
55 17 0.24
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (55 bp):
AACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
Found at i:122002790 original size:26 final size:26
Alignment explanation
Indices: 122002754--122002889 Score: 220
Period size: 26 Copynumber: 5.2 Consensus size: 26
122002744 CATGAAATTC
*
122002754 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
122002780 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
122002806 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
122002832 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
122002858 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
122002884 TTATCA
1 TTATCA
122002890 ATTTGTACCA
Statistics
Matches: 107, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
26 105 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:122006855 original size:27 final size:27
Alignment explanation
Indices: 122006818--122006954 Score: 160
Period size: 27 Copynumber: 5.2 Consensus size: 27
122006808 AGCATGGCTG
* *
122006818 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
122006844 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
122006872 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
122006899 CCA-AT-CAGAT-TTGTGGCAGAGCCA
1 CCAGATACAGATAATGTGGCAGAGCCA
* *
122006923 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
122006950 CCAGA
1 CCAGA
122006955 ACGCTTCCTC
Statistics
Matches: 100, Mismatches: 4, Indels: 13
0.85 0.03 0.11
Matches are distributed among these distances:
24 16 0.16
25 7 0.07
26 11 0.11
27 49 0.49
28 17 0.17
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:122006925 original size:51 final size:54
Alignment explanation
Indices: 122006818--122006954 Score: 183
Period size: 51 Copynumber: 2.6 Consensus size: 54
122006808 AGCATGGCTG
* *
122006818 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGAT-ATCGTGGCAGAGCCA
*
122006872 CCAGAACAGATATATGTGGCAGAGCCACCA-AT-CAGAT-TTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATATCGTGGCAGAGCCA
* * *
122006923 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
122006955 ACGCTTCCTC
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
51 40 0.53
52 1 0.01
53 5 0.07
54 14 0.19
55 15 0.20
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATATCGTGGCAGAGCCA
Found at i:122008663 original size:25 final size:26
Alignment explanation
Indices: 122008569--122008677 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
122008559 CATGAAATTC
122008569 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
122008595 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
122008621 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
122008647 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
122008672 TTATCA
1 TTATCA
122008678 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:122010440 original size:14 final size:14
Alignment explanation
Indices: 122010421--122010455 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
122010411 TTCGTACTTT
122010421 TACTTTAATATACA
1 TACTTTAATATACA
122010435 TACTTTAATATACA
1 TACTTTAATATACA
*
122010449 TAGTTTA
1 TACTTTA
122010456 GTAATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (14 bp):
TACTTTAATATACA
Found at i:122022252 original size:13 final size:13
Alignment explanation
Indices: 122022236--122022290 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
122022226 TCCCAATAGG
122022236 AGGGTACCATGGA
1 AGGGTACCATGGA
*
122022249 AGGGTATCATTGG-
1 AGGGTACCA-TGGA
*
122022262 AGGGTACTCATGGG
1 AGGGTAC-CATGGA
122022276 AGGGTACCATGGA
1 AGGGTACCATGGA
122022289 AG
1 AG
122022291 TAGTTCCGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 24 0.67
14 12 0.33
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (13 bp):
AGGGTACCATGGA
Found at i:122022272 original size:14 final size:14
Alignment explanation
Indices: 122022234--122022282 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
122022224 GGTCCCAATA
122022234 GGAGGGTAC-CA-T
1 GGAGGGTACTCATT
122022246 GGAAGGGTA-TCATT
1 GG-AGGGTACTCATT
*
122022260 GGAGGGTACTCATG
1 GGAGGGTACTCATT
122022274 GGAGGGTAC
1 GGAGGGTAC
122022283 CATGGAAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 2 0.06
13 14 0.44
14 16 0.50
ACGTcount: A:0.24, C:0.12, G:0.43, T:0.20
Consensus pattern (14 bp):
GGAGGGTACTCATT
Found at i:122024911 original size:25 final size:25
Alignment explanation
Indices: 122024883--122024930 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
122024873 TTATACCATG
* *
122024883 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
122024908 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
122024931 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:122024999 original size:20 final size:20
Alignment explanation
Indices: 122024974--122025032 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
122024964 TAAATATGGT
*
122024974 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
122024994 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
122025014 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
122025033 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:122025110 original size:24 final size:24
Alignment explanation
Indices: 122025083--122025225 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
122025073 GAGGAAGTGA
122025083 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
122025107 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
122025131 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
122025154 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
122025178 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
122025202 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
122025226 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:122025176 original size:47 final size:47
Alignment explanation
Indices: 122025083--122025225 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
122025073 GAGGAAGTGA
122025083 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
122025131 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
122025178 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
122025226 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:122025199 original size:71 final size:72
Alignment explanation
Indices: 122025083--122025226 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
122025073 GAGGAAGTGA
*
122025083 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
122025146 CCAGTTAT
65 CCAGTTAT
** * *
122025154 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
122025219 CAGTTAT
66 CAGTTAT
122025226 A
1 A
122025227 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:122025452 original size:31 final size:31
Alignment explanation
Indices: 122025417--122025480 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
122025407 CGTTTACAGT
122025417 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
122025448 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
122025479 AA
1 AA
122025481 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:122030855 original size:25 final size:26
Alignment explanation
Indices: 122030822--122030877 Score: 98
Period size: 25 Copynumber: 2.2 Consensus size: 26
122030812 AGGAAACAAC
122030822 AAAA-ACAAAATCTAATCTAAAAA-G
1 AAAAGACAAAATCTAATCTAAAAATG
122030846 AAAAGACAAAATCTAATCTAAAAATG
1 AAAAGACAAAATCTAATCTAAAAATG
122030872 AAAAGA
1 AAAAGA
122030878 AAAGAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 4 0.13
25 19 0.63
26 7 0.23
ACGTcount: A:0.66, C:0.11, G:0.07, T:0.16
Consensus pattern (26 bp):
AAAAGACAAAATCTAATCTAAAAATG
Found at i:122030879 original size:5 final size:5
Alignment explanation
Indices: 122030866--122030895 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
122030856 ATCTAATCTA
122030866 AAAATG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAA-G AAAAG AAAAG AAAAG AAAAG AAAA
122030896 CCTAACCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:122036937 original size:28 final size:28
Alignment explanation
Indices: 122036897--122036965 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
122036887 GCTATGTACA
122036897 GCACTTAGTGTGCGAGACATCGAGTATG
1 GCACTTAGTGTGCGAGACATCGAGTATG
*
122036925 GCACTTAATGTGCGAGACATCGAGTATG
1 GCACTTAGTGTGCGAGACATCGAGTATG
122036953 GCACTTAGTGTGC
1 GCACTTAGTGTGC
122036966 AAAATATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (28 bp):
GCACTTAGTGTGCGAGACATCGAGTATG
Found at i:122036978 original size:28 final size:28
Alignment explanation
Indices: 122036897--122036979 Score: 76
Period size: 28 Copynumber: 3.0 Consensus size: 28
122036887 GCTATGTACA
* * * *
122036897 GCACTTAGTGTGCGAGACATCGAGTATG
1 GCACTTAATGTGCAAAACATCAAGTATG
* * *
122036925 GCACTTAATGTGCGAGACATCGAGTATG
1 GCACTTAATGTGCAAAACATCAAGTATG
* * *
122036953 GCACTTAGTGTGCAAAATATTAAGTAT
1 GCACTTAATGTGCAAAACATCAAGTAT
122036980 TCAACGGCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (28 bp):
GCACTTAATGTGCAAAACATCAAGTATG
Found at i:122038384 original size:37 final size:37
Alignment explanation
Indices: 122038343--122038416 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
122038333 ATGCCTGAAA
122038343 AAAGTATGTTTAATTGTGTTGTAAGTCTGGTAATGCT
1 AAAGTATGTTTAATTGTGTTGTAAGTCTGGTAATGCT
122038380 AAAGTATGTTTAATTGTGTTGTAAGTCTGGTAATGCT
1 AAAGTATGTTTAATTGTGTTGTAAGTCTGGTAATGCT
122038417 CCTTAACACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.43
Consensus pattern (37 bp):
AAAGTATGTTTAATTGTGTTGTAAGTCTGGTAATGCT
Found at i:122039693 original size:11 final size:12
Alignment explanation
Indices: 122039667--122039698 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
122039657 AACATTTAGC
122039667 TTTTAGTTATAA
1 TTTTAGTTATAA
122039679 TTTTAGTTA-AA
1 TTTTAGTTATAA
122039690 TTTTA-TTAT
1 TTTTAGTTAT
122039699 TAGTCCCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 7 0.37
12 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (12 bp):
TTTTAGTTATAA
Found at i:122040541 original size:20 final size:20
Alignment explanation
Indices: 122040508--122040546 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
122040498 CAAATCTAAT
* *
122040508 AAAAACAAACAAACATTTAA
1 AAAAAAAAAAAAACATTTAA
*
122040528 AAAAAAAAAAAAACCTTTA
1 AAAAAAAAAAAAACATTTA
122040547 CATACCTGAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAAAAAAAAAACATTTAA
Found at i:122047859 original size:17 final size:16
Alignment explanation
Indices: 122047827--122047868 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
122047817 TTATAATTTA
122047827 TTAATAAAA-ATGATT
1 TTAATAAAATATGATT
*
122047842 TTAATTAAAATATTATT
1 TTAA-TAAAATATGATT
*
122047859 TCAATAAAAT
1 TTAATAAAAT
122047869 GTTTAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 8 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
TTAATAAAATATGATT
Found at i:122050237 original size:40 final size:40
Alignment explanation
Indices: 122050192--122050359 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
122050182 CGGAATATAA
122050192 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
122050232 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
122050272 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
122050312 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
122050352 CCGGATAT
1 CCGGATAT
122050360 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:122050342 original size:80 final size:80
Alignment explanation
Indices: 122050208--122050357 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
122050198 ATAATCACGT
*
122050208 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
122050272 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
122050288 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
122050351 CCCGGAT
64 CCCGGAT
122050358 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:122058230 original size:40 final size:40
Alignment explanation
Indices: 122058185--122058352 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
122058175 CGGAATATAA
122058185 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
122058225 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
122058265 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
122058305 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
122058345 CCGGATAT
1 CCGGATAT
122058353 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:122058335 original size:80 final size:80
Alignment explanation
Indices: 122058201--122058350 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
122058191 ATAATCACGT
*
122058201 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
122058265 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
122058281 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
122058344 CCCGGAT
64 CCCGGAT
122058351 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:122065291 original size:27 final size:28
Alignment explanation
Indices: 122065244--122065298 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
122065234 CATTTTATCA
122065244 TCAATTCATATACATGTATATAA-ATAT
1 TCAATTCATATACATGTATATAACATAT
122065271 TCAATATCATATA-AT-TCATATAACATAT
1 TCAAT-TCATATACATGT-ATATAACATAT
122065299 CATATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 1 0.04
27 13 0.52
28 11 0.44
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (28 bp):
TCAATTCATATACATGTATATAACATAT
Found at i:122065318 original size:21 final size:20
Alignment explanation
Indices: 122065260--122065318 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
122065250 CATATACATG
122065260 TATATAAATAT-TCAATATCA
1 TATATAAATATATC-ATATCA
** *
122065280 TATAATTCATATAACATATCA
1 TAT-ATAAATATATCATATCA
122065301 TATATAAATAATATCATA
1 TATATAAAT-ATATCATA
122065319 ATATTTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 7 0.23
21 22 0.73
22 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (20 bp):
TATATAAATATATCATATCA
Found at i:122068992 original size:16 final size:16
Alignment explanation
Indices: 122068951--122069003 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
122068941 TATTTATTTA
122068951 AATATTAA-ATT-ATT
1 AATATTAATATTAATT
*
122068965 ACTA-TAATTATTAATT
1 AATATTAA-TATTAATT
122068981 AATATTAATATTATATT
1 AATATTAATATTA-ATT
122068998 -ATATTA
1 AATATTA
122069004 TGAAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 3 0.09
14 3 0.09
15 3 0.09
16 17 0.53
17 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTAATATTAATT
Found at i:122071044 original size:47 final size:47
Alignment explanation
Indices: 122070981--122071082 Score: 141
Period size: 47 Copynumber: 2.1 Consensus size: 47
122070971 TTGTTACTGT
* * * * *
122070981 TACCGTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTTTGTG
1 TACCG-TACTATTACTGTTCCAGATTTGTTCCGAAGAGGTACTCTATG
*
122071029 TACCGTACTATTACTGTTCCAGATTTGTTCTGAAGAGGTACTCTATG
1 TACCGTACTATTACTGTTCCAGATTTGTTCCGAAGAGGTACTCTATG
122071076 TACCGTA
1 TACCGTA
122071083 TTGCTACTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 43 0.90
48 5 0.10
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (47 bp):
TACCGTACTATTACTGTTCCAGATTTGTTCCGAAGAGGTACTCTATG
Found at i:122071096 original size:53 final size:50
Alignment explanation
Indices: 122070987--122071099 Score: 133
Period size: 47 Copynumber: 2.3 Consensus size: 50
122070977 CTGTTACCGT
* * * *
122070987 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTTTGTGTACCGTAC
1 TACTGTTACTGTTCCAGATTTGTTCCGAAGAGGTACTCTATGTACCGTAC
*
122071037 TA---TTACTGTTCCAGATTTGTTCTGAAGAGGTACTCTATGTACCGTATTGC
1 TACTGTTACTGTTCCAGATTTGTTCCGAAGAGGTACTCTATGTACCGTA---C
122071087 TACTGTTACTGTT
1 TACTGTTACTGTT
122071100 ACTGTTTCGG
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
47 39 0.75
50 5 0.10
53 8 0.15
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (50 bp):
TACTGTTACTGTTCCAGATTTGTTCCGAAGAGGTACTCTATGTACCGTAC
Found at i:122071269 original size:18 final size:18
Alignment explanation
Indices: 122071221--122071306 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
122071211 AAAGATCGAC
* *
122071221 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-CTGAT
122071240 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
122071258 TATTATTGAATAATTGAT
1 TGTTACTGAATAACTGAT
* *
122071276 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTGAT
122071294 TGTTACTGAATAA
1 TGTTACTGAATAA
122071307 ATAATCATTC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 43 0.77
19 13 0.23
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:122071287 original size:36 final size:37
Alignment explanation
Indices: 122071218--122071306 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
122071208 TGGAAAGATC
* *
122071218 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTATTACTGAATAATTTAATTGTTACCGAATAACT
* * *
122071255 GATTATTATTGAATAA-TTGATTGTTACCGAATAACT
1 GACTATTACTGAATAATTTAATTGTTACCGAATAACT
*
122071291 GACTGTTACTGAATAA
1 GACTATTACTGAATAA
122071307 ATAATCATTC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 31 0.70
37 13 0.30
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (37 bp):
GACTATTACTGAATAATTTAATTGTTACCGAATAACT
Found at i:122072985 original size:27 final size:27
Alignment explanation
Indices: 122072947--122073000 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
122072937 AAACACCAAA
122072947 ATTCATATACTTTTTCATACCCATTTT
1 ATTCATATACTTTTTCATACCCATTTT
122072974 ATTCATATACTTTTTCATACCCATTTT
1 ATTCATATACTTTTTCATACCCATTTT
122073001 TACTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTCATATACTTTTTCATACCCATTTT
Found at i:122074368 original size:25 final size:26
Alignment explanation
Indices: 122074331--122074382 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
122074321 TCAAACATGC
122074331 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
122074357 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
122074382 A
1 A
122074383 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:122075896 original size:26 final size:26
Alignment explanation
Indices: 122075865--122075972 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
122075855 TGAAATGCCC
*
122075865 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
122075891 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
122075917 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
122075943 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
122075969 ATCA
1 ATCA
122075973 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:122082957 original size:26 final size:26
Alignment explanation
Indices: 122082926--122083033 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
122082916 TGAAATGCCC
*
122082926 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
122082952 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
122082978 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
122083004 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
122083030 ATCA
1 ATCA
122083034 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:122101965 original size:25 final size:25
Alignment explanation
Indices: 122101931--122101981 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
122101921 TATTAAGTTT
122101931 AGCTATGTGCATGTAAGTGAATTTG
1 AGCTATGTGCATGTAAGTGAATTTG
122101956 AGCTATGTGCATGTAAGTGAATTTG
1 AGCTATGTGCATGTAAGTGAATTTG
122101981 A
1 A
122101982 AACCCCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (25 bp):
AGCTATGTGCATGTAAGTGAATTTG
Found at i:122106382 original size:30 final size:28
Alignment explanation
Indices: 122106328--122106384 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
122106318 AATTGTAGAA
*
122106328 TAAATTGTAAATTTTGAGTATTAGGGAC
1 TAAATTGTAAATTTTGAATATTAGGGAC
*
122106356 TAAATTGTGAAATTTTTGAATTTTAGGGA
1 TAAATTGT-AAA-TTTTGAATATTAGGGA
122106385 TTTAAGTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 3 0.12
30 14 0.56
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (28 bp):
TAAATTGTAAATTTTGAATATTAGGGAC
Found at i:122107059 original size:40 final size:41
Alignment explanation
Indices: 122106966--122107068 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 41
122106956 GACTTCGAGT
* * * *
122106966 CGATGAGACACTAGGTGTCAATTTACTACTTCAGATTAATT
1 CGATGAGACACTGGGTGTCAAATTACTACTACAGATTAATC
* *
122107007 CGATGAAACACTGGGTGTCAAATTATTACTAC-GAATT-ATC
1 CGATGAGACACTGGGTGTCAAATTACTACTACAG-ATTAATC
* *
122107047 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
122107069 CTGGTGTGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
40 22 0.42
41 30 0.58
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCAAATTACTACTACAGATTAATC
Found at i:122109838 original size:45 final size:45
Alignment explanation
Indices: 122109783--122109892 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
122109773 ATGGTAGCAA
* * **
122109783 TAACAGTAACAGTAACAGTATTCAACACATAAAATTTTGAATAGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAATGTCAAATAGG
* * * * *
122109828 TAACGGTAACAGTAATAGTATTCGACACACAAAGTGTCAAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAATGTCAAATAGG
*
122109873 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
122109893 ATAGTAGTCG
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAATGTCAAATAGG
Found at i:122111240 original size:12 final size:13
Alignment explanation
Indices: 122111224--122111261 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
122111214 AAGTAATGTA
122111224 AGGTATAATATAT
1 AGGTATAATATAT
*
122111237 -GGTAAAATATAT
1 AGGTATAATATAT
122111249 AGTGTATAATATA
1 AG-GTATAATATA
122111262 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:122111334 original size:14 final size:13
Alignment explanation
Indices: 122111313--122111384 Score: 58
Period size: 14 Copynumber: 5.4 Consensus size: 13
122111303 GTAATAAAAA
122111313 AATATATAATAAG
1 AATATATAATAAG
*
122111326 AAGTATATAAT-AT
1 AA-TATATAATAAG
*
122111339 AATATATAATAAAA
1 AATATATAAT-AAG
* *
122111353 AATACTATAAGGAAT
1 AATA-TATAA-TAAG
122111368 AATATATAATAA-
1 AATATATAATAAG
122111380 AATAT
1 AATAT
122111385 GATATGTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
12 13 0.27
13 7 0.14
14 18 0.37
15 11 0.22
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (13 bp):
AATATATAATAAG
Found at i:122111349 original size:41 final size:41
Alignment explanation
Indices: 122111304--122111413 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 41
122111294 ATACGATAAG
*
122111304 TAATAAAAAAATATATAATAAGAAGTATATAATATAATAT-A
1 TAATAAAAAAATATATAATAAGAA-TATATAATAAAATATGA
* *
122111345 TAAT-AAAAAATACTATAAGGAATAATATATAATAAAATATGA
1 TAATAAAAAAATA-TATAA-TAAGAATATATAATAAAATATGA
* *
122111387 TATGTAATAAAATATA-AATAA-AATATA
1 TA-ATAAAAAAATATATAATAAGAATATA
122111414 ATGAAATAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
40 14 0.24
41 25 0.43
42 9 0.16
43 3 0.05
44 7 0.12
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (41 bp):
TAATAAAAAAATATATAATAAGAATATATAATAAAATATGA
Found at i:122111389 original size:17 final size:17
Alignment explanation
Indices: 122111369--122111401 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
122111359 ATAAGGAATA
122111369 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
122111386 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
122111402 AAATAAAATA
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:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:122111400 original size:29 final size:26
Alignment explanation
Indices: 122111306--122111409 Score: 93
Period size: 26 Copynumber: 3.8 Consensus size: 26
122111296 ACGATAAGTA
* * *
122111306 ATAAAAAAATATATAATAAGAAGTAT
1 ATAATAAAATATATAATAAAAAATAT
*
122111332 ATAATATAATATATAATAAAAAATACT
1 ATAATAAAATATATAATAAAAAATA-T
*
122111359 ATAAGGAATAATATATAATAAAATATGATAT
1 ATAA-TAA-AATATATAATAAAA-A--ATAT
*
122111390 GTAATAAAATATA-AATAAAA
1 ATAATAAAATATATAATAAAA
122111410 TATAATGAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
26 21 0.33
27 5 0.08
28 8 0.12
29 20 0.31
30 3 0.05
31 4 0.06
32 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (26 bp):
ATAATAAAATATATAATAAAAAATAT
Found at i:122111550 original size:13 final size:12
Alignment explanation
Indices: 122111525--122111573 Score: 62
Period size: 13 Copynumber: 3.9 Consensus size: 12
122111515 AATTTACAGA
*
122111525 AAATAAAAAAAT
1 AAATAATAAAAT
122111537 AAATATATAAAAT
1 AAATA-ATAAAAT
*
122111550 ATATAATAAAAT
1 AAATAATAAAAT
122111562 ATAATAATAAAA
1 A-AATAATAAAA
122111574 ATAATATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 13 0.41
13 19 0.59
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:122111577 original size:12 final size:12
Alignment explanation
Indices: 122111526--122111579 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 12
122111516 ATTTACAGAA
122111526 AATAA-AAAAAT
1 AATAATAAAAAT
122111537 AA-ATATATAAAAT
1 AATA-ATA-AAAAT
122111550 ATATAATAAAATAT
1 A-ATAATAAAA-AT
122111564 AATAATAAAAAT
1 AATAATAAAAAT
122111576 AATA
1 AATA
122111580 TACATTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
10 1 0.03
11 3 0.08
12 7 0.19
13 18 0.49
14 7 0.19
15 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:122113223 original size:44 final size:44
Alignment explanation
Indices: 122113168--122113445 Score: 218
Period size: 44 Copynumber: 6.4 Consensus size: 44
122113158 CTCCTTGTCG
* * * *
122113168 AATACAAAGATGTCAAATCTACTATC-TCTGATTTGCTCTCTGAC
1 AATACAGAGATGCCAAATCTACTATCTTC-GATCTGCTCCCTGAC
* *
122113212 CATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCCTGAC
1 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCCCTGAC
* * * *
122113256 AATACATG-GATGCCAAATCTGCT-TCTTGGATTTGC-CCCTCGTC
1 AATACA-GAGATGCCAAATCTACTATCTTCGATCTGCTCCCT-GAC
* * * *
122113299 AAATA-TGAAGATGCCAAA--T-C-ATCTTGGATCTGCTCCCCGTC
1 -AATACAG-AGATGCCAAATCTACTATCTTCGATCTGCTCCCTGAC
* * * ** *
122113340 GAATACGGAGATGCCAAATAT-C-ATCTTCGATCTGTTCTTTGAT
1 -AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCCCTGAC
* * *
122113383 AATACAGAGACGCCAAATCTACTATCTTTGATCTGCTCTCTGAC
1 AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCCCTGAC
122113427 AATACAGAGATGCCAAATC
1 AATACAGAGATGCCAAATC
122113446 ATCTTGGATC
Statistics
Matches: 191, Mismatches: 30, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
41 29 0.15
42 27 0.14
43 29 0.15
44 103 0.54
45 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
AATACAGAGATGCCAAATCTACTATCTTCGATCTGCTCCCTGAC
Found at i:122114661 original size:46 final size:46
Alignment explanation
Indices: 122114480--122114661 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
122114470 TTTGACATGA
* * * * * *
122114480 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
122114526 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
122114572 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
122114618 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
122114662 AGAGCACACT
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:122123429 original size:37 final size:37
Alignment explanation
Indices: 122123387--122123457 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
122123377 AACTCACCAC
122123387 AGTTCCTTGTTTCTCTACTCTCATTTTTAGAAGTCAT
1 AGTTCCTTGTTTCTCTACTCTCATTTTTAGAAGTCAT
* *
122123424 AGTTCCTTGTTTCTCTTCTCTCGTTTTTAGAAGT
1 AGTTCCTTGTTTCTCTACTCTCATTTTTAGAAGT
122123458 TAACATACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.15, C:0.21, G:0.13, T:0.51
Consensus pattern (37 bp):
AGTTCCTTGTTTCTCTACTCTCATTTTTAGAAGTCAT
Found at i:122129046 original size:12 final size:13
Alignment explanation
Indices: 122129030--122129067 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
122129020 AAGTAATGTA
122129030 AGGTATAATATAT
1 AGGTATAATATAT
*
122129043 -GGTAAAATATAT
1 AGGTATAATATAT
122129055 AGTGTATAATATA
1 AG-GTATAATATA
122129068 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:122129149 original size:12 final size:12
Alignment explanation
Indices: 122129118--122129219 Score: 50
Period size: 12 Copynumber: 8.5 Consensus size: 12
122129108 AGTAATAAAA
*
122129118 AATATATAATAAG
1 AATATATAAT-AT
122129131 AAGTATATAATAT
1 AA-TATATAATAT
122129144 AATATATAATA-
1 AATATATAATAT
* * *
122129155 AAAAAATACTAT
1 AATATATAATAT
*
122129167 AAGGA-ATAATAT
1 AA-TATATAATAT
*
122129179 -ATAATAAAATAT
1 AAT-ATATAATAT
* * *
122129191 GATATGTAATAA
1 AATATATAATAT
*
122129203 AATATA-AATAA
1 AATATATAATAT
122129214 AATATA
1 AATATA
122129220 ATGAAATAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
11 21 0.30
12 33 0.47
13 8 0.11
14 8 0.11
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (12 bp):
AATATATAATAT
Found at i:122129182 original size:27 final size:27
Alignment explanation
Indices: 122129147--122129218 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
122129137 ATAATATAAT
122129147 ATATAATAAAAAAATACT-ATAAGGAATA
1 ATAT-ATAAAAAAATA-TGATAAGGAATA
* * *
122129175 ATATATAATAAAATATGATATGTAATA
1 ATATATAAAAAAATATGATAAGGAATA
*
122129202 AAATATAAATAAAATAT
1 ATATATAAA-AAAATAT
122129219 AATGAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.03
27 25 0.68
28 11 0.30
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (27 bp):
ATATATAAAAAAATATGATAAGGAATA
Found at i:122129195 original size:17 final size:17
Alignment explanation
Indices: 122129175--122129207 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
122129165 ATAAGGAATA
122129175 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
122129192 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
122129208 AAATAAAATA
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:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:122129218 original size:40 final size:41
Alignment explanation
Indices: 122129100--122129219 Score: 111
Period size: 42 Copynumber: 2.8 Consensus size: 41
122129090 AATATAAACC
*
122129100 ATATGATAAGTAATAAAAAATATATAATAAGAAGTATATAATATA
1 ATATGAT-AGTAAT--AAAATATATAATAAGAA-TATATAATAAA
* * * *
122129145 ATAT-ATAATAAAAAAATACTATAAGGAATAATATATAATAAA
1 ATATGATAGTAATAAAATA-TATAA-TAAGAATATATAATAAA
122129187 ATATGATATGTAATAAAATATA-AATAA-AATATA
1 ATATGATA-GTAATAAAATATATAATAAGAATATA
122129220 ATGAAATAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
40 6 0.10
41 8 0.13
42 21 0.33
43 13 0.21
44 11 0.17
45 4 0.06
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.31
Consensus pattern (41 bp):
ATATGATAGTAATAAAATATATAATAAGAATATATAATAAA
Found at i:122129356 original size:11 final size:12
Alignment explanation
Indices: 122129332--122129370 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
122129322 TTTACAGAAA
*
122129332 ATAAAAAAATAAT
1 ATAATAAAAT-AT
122129345 ATATATAAAATAT
1 ATA-ATAAAATAT
122129358 ATAATAAAATAT
1 ATAATAAAATAT
122129370 A
1 A
122129371 ATTTATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 10 0.42
13 8 0.33
14 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAATAAAATAT
Found at i:122129361 original size:26 final size:30
Alignment explanation
Indices: 122129332--122129394 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
122129322 TTTACAGAAA
122129332 ATAA-AAAA-ATAATATAT-A-TAAAATAT
1 ATAATAAAATATAATATATAAGTAAAATAT
*
122129358 ATAATAAAATATAATTTATAAGTAAAATAT
1 ATAATAAAATATAATATATAAGTAAAATAT
122129388 ATAATAA
1 ATAATAA
122129395 TAAAAATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.12
27 4 0.12
28 8 0.25
29 1 0.03
30 15 0.47
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
ATAATAAAATATAATATATAAGTAAAATAT
Found at i:122129371 original size:19 final size:19
Alignment explanation
Indices: 122129347--122129397 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
122129337 AAAATAATAT
122129347 ATATAAAATATATAA-TAAA
1 ATAT-AAATATATAAGTAAA
*
122129366 ATAT-AATTTATAAGTAAA
1 ATATAAATATATAAGTAAA
122129384 ATATATAATA-ATAA
1 ATATA-AATATATAA
122129398 AAATAATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 8 0.30
20 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATATAAATATATAAGTAAA
Found at i:122129377 original size:28 final size:29
Alignment explanation
Indices: 122129332--122129402 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
122129322 TTTACAGAAA
122129332 ATAA-AAAAATAATATAT-A-TAAAATAT
1 ATAATAAAAATAATATATAAGTAAAATAT
*
122129358 ATAATAAAATATAATTTATAAGTAAAATAT
1 ATAATAAAA-ATAATATATAAGTAAAATAT
122129388 ATAATAATAAA-AATA
1 ATAATAA-AAATAATA
122129403 ATGTAATGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 4 0.11
27 4 0.11
28 8 0.21
29 4 0.11
30 16 0.42
31 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (29 bp):
ATAATAAAAATAATATATAAGTAAAATAT
Found at i:122129397 original size:26 final size:25
Alignment explanation
Indices: 122129307--122129397 Score: 57
Period size: 22 Copynumber: 3.6 Consensus size: 25
122129297 ACAATTAATG
*
122129307 AATAATAATACATAATTTACAG-AA
1 AATAATAATACATAATTTATAGTAA
* *
122129331 AATAA-AA-AAATAATATATA-TAA
1 AATAATAATACATAATTTATAGTAA
*
122129353 AATATATAATAAAATATAATTTATAAGTAA
1 AATA-ATAAT---ACATAATTTAT-AGTAA
122129383 AATATATAATA-ATAA
1 AATA-ATAATACATAA
122129398 AAATAATGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
22 15 0.28
23 3 0.06
24 7 0.13
26 4 0.08
27 1 0.02
28 9 0.17
29 1 0.02
30 13 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
AATAATAATACATAATTTATAGTAA
Found at i:122130947 original size:40 final size:40
Alignment explanation
Indices: 122130898--122130981 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
122130888 ATTCGTTTCA
* * *
122130898 TCAGAAATTTTATAGTTCAATGCAGTATACATAACAATAT
1 TCAGAAATTTCACAGTTCAATGCAGTATACAAAACAATAT
* * * *
122130938 TCAGTAATTTCACAGTTCAATTCGGTATTCAAAACAATAT
1 TCAGAAATTTCACAGTTCAATGCAGTATACAAAACAATAT
122130978 TCAG
1 TCAG
122130982 CATCCCATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (40 bp):
TCAGAAATTTCACAGTTCAATGCAGTATACAAAACAATAT
Found at i:122131356 original size:22 final size:22
Alignment explanation
Indices: 122131314--122131359 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
122131304 CTAACTAAAC
*
122131314 TCATATATTTTTCTTCTTCAAT
1 TCATATATTTTTATTCTTCAAT
*
122131336 TCATATCTTTTTATTAC-TCAAT
1 TCATATATTTTTATT-CTTCAAT
122131358 TC
1 TC
122131360 CCTACCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.57
Consensus pattern (22 bp):
TCATATATTTTTATTCTTCAAT
Found at i:122131922 original size:3 final size:3
Alignment explanation
Indices: 122131914--122131948 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
122131904 TATTTAACAT
122131914 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
122131949 TCTTTTACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:122132002 original size:24 final size:23
Alignment explanation
Indices: 122131975--122132042 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 23
122131965 TAAGTAAATT
122131975 ATTTATTAATTTACATTTGTATTC
1 ATTTATTAA-TTACATTTGTATTC
* *
122131999 ATTTTCATT-ATTACACTTGTATTT
1 A-TTT-ATTAATTACATTTGTATTC
* *
122132023 AATTATTACCTTACATTTGT
1 ATTTATTA-ATTACATTTGT
122132043 CACTCCTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
22 3 0.09
23 2 0.06
24 23 0.66
25 4 0.11
26 3 0.09
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTTATTAATTACATTTGTATTC
Found at i:122132612 original size:6 final size:6
Alignment explanation
Indices: 122132601--122132626 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
122132591 CACGACAGAG
122132601 AGAGAA AGAGAA AGAGAA AGAGAA AG
1 AGAGAA AGAGAA AGAGAA AGAGAA AG
122132627 CAACCGTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:122135255 original size:68 final size:68
Alignment explanation
Indices: 122134933--122135255 Score: 324
Period size: 68 Copynumber: 4.8 Consensus size: 68
122134923 TAGGTGTACA
* * * * * * * **
122134933 ACACCATACCGTGTAAGACCATAGCTAGGCTATGGCAACATATAAAATCTGCGAGGGCAGTAAAC
1 ACACCATATCGTGTAAGACTATAGCTAGGCTATGGCAACATATGAAGTCTACCAAGATAGTAAAC
122134998 ATG
66 ATG
** * * * * * * * *
122135001 GTACCATATCATGTAAAAC-ATAGCTAGGTTCTGGCAACATATAAAGCCCACCAAGATAGTAAAT
1 ACACCATATCGTGTAAGACTATAGCTAGGCTATGGCAACATATGAAGTCTACCAAGATAGTAAAC
122135065 ATG
66 ATG
* * * * *
122135068 ATACCATATCGTGTAAGACTATAGCTGGGCTATGGCAATATATGAAGTCCACCAAGATAGTTAAC
1 ACACCATATCGTGTAAGACTATAGCTAGGCTATGGCAACATATGAAGTCTACCAAGATAGTAAAC
122135133 ATG
66 ATG
* * * * * * **
122135136 ACACCATATCGTGTAAGACTATAGTTGGGCCATAGAAACATATGAATTCTACCGGGATAGTAAAC
1 ACACCATATCGTGTAAGACTATAGCTAGGCTATGGCAACATATGAAGTCTACCAAGATAGTAAAC
122135201 ATG
66 ATG
* * *
122135204 GCACCATATCATGTAAGACTATAGCTAGGCTATGACAACATATGAAGTCTAC
1 ACACCATATCGTGTAAGACTATAGCTAGGCTATGGCAACATATGAAGTCTAC
122135256 TAGGGCATTG
Statistics
Matches: 207, Mismatches: 47, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
67 53 0.26
68 154 0.74
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (68 bp):
ACACCATATCGTGTAAGACTATAGCTAGGCTATGGCAACATATGAAGTCTACCAAGATAGTAAAC
ATG
Found at i:122135619 original size:15 final size:14
Alignment explanation
Indices: 122135581--122135646 Score: 64
Period size: 14 Copynumber: 4.6 Consensus size: 14
122135571 ATTTGTTTTA
122135581 AATTTATATAAT-T
1 AATTTATATAATAT
*
122135594 AATGATATATAAATAT
1 AAT-TTATAT-AATAT
122135610 AATTTATATAATAT
1 AATTTATATAATAT
122135624 GAATTTATGATAAT-T
1 -AATTTAT-ATAATAT
*
122135639 AAATTATA
1 AATTTATA
122135647 ATGATATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
13 4 0.09
14 16 0.36
15 16 0.36
16 9 0.20
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (14 bp):
AATTTATATAATAT
Found at i:122136113 original size:14 final size:14
Alignment explanation
Indices: 122136094--122136126 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
122136084 TAATATAAAA
122136094 AAATAAAATAAAGT
1 AAATAAAATAAAGT
*
122136108 AAATAAATTAAAGT
1 AAATAAAATAAAGT
122136122 AAATA
1 AAATA
122136127 GAAAAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (14 bp):
AAATAAAATAAAGT
Found at i:122139730 original size:33 final size:33
Alignment explanation
Indices: 122139693--122139758 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
122139683 GTTAGGAAGT
122139693 CTGTTAAGTAGTATGATTTAATTGTTACATTTG
1 CTGTTAAGTAGTATGATTTAATTGTTACATTTG
122139726 CTGTTAAGTAGTATGATTTAATTGTTACATTTG
1 CTGTTAAGTAGTATGATTTAATTGTTACATTTG
122139759 GTATCCAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (33 bp):
CTGTTAAGTAGTATGATTTAATTGTTACATTTG
Found at i:122140065 original size:23 final size:21
Alignment explanation
Indices: 122140011--122140052 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
122140001 ATTTATGAAG
122140011 TTAACTGAGTGGTTAATTAAA
1 TTAACTGAGTGGTTAATTAAA
122140032 TTAACTGAGTGGTTAATTAAA
1 TTAACTGAGTGGTTAATTAAA
122140053 GTTTAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (21 bp):
TTAACTGAGTGGTTAATTAAA
Found at i:122140527 original size:18 final size:20
Alignment explanation
Indices: 122140504--122140547 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
122140494 GTAATACATG
122140504 TATTTAATTA-T-TAAAAGA
1 TATTTAATTATTATAAAAGA
122140522 TATTT-ATTATTTATAAAAGA
1 TATTTAATTA-TTATAAAAGA
122140542 TATTTA
1 TATTTA
122140548 TATGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 1 0.05
20 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTAATTATTATAAAAGA
Found at i:122140919 original size:21 final size:20
Alignment explanation
Indices: 122140890--122140930 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
122140880 CAAGGGAGAA
122140890 AAAGAAAGAAAGAAAGAAAAT
1 AAAGAAAGAAA-AAAGAAAAT
* *
122140911 AAAGGAAGAAAAGAGAAAAT
1 AAAGAAAGAAAAAAGAAAAT
122140931 TGGGGGTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (20 bp):
AAAGAAAGAAAAAAGAAAAT
Found at i:122143154 original size:50 final size:50
Alignment explanation
Indices: 122143035--122143319 Score: 324
Period size: 50 Copynumber: 5.7 Consensus size: 50
122143025 ATCCGGTTCG
* * * *
122143035 CATAGTAGCCTGCACTTAGTACTATACATGCGACC-AATTATC-CAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGA-TACA
**
122143084 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGATACA
* * * * * *
122143134 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCTGATACA
* * ** *
122143185 CATAGTAGCCTGCACTTAGTACTACATATGCAACC-AATTATCCGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGATACA
* * **
122143234 CATAGTAACCTGAACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGATACA
* *
122143284 CGTAGTAACCTGCACTTAGTACTACACACGTGACCT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT
122143320 CACAATAGAT
Statistics
Matches: 198, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
49 70 0.35
50 91 0.46
51 37 0.19
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGATACA
Found at i:122143262 original size:150 final size:150
Alignment explanation
Indices: 122143024--122143316 Score: 498
Period size: 150 Copynumber: 2.0 Consensus size: 150
122143014 TAGACAAGGC
* * *
122143024 TATCCGGTTCGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAATTATCCAGTACACATAG
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCAGTACACATAG
* * *
122143089 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGT
66 TAACCTGAACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAACCTGCACTTAGT
122143154 ACTACACACGTGATCGAAGT
131 ACTACACACGTGATCGAAGT
* *
122143174 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCAACCAATTATCC-GATACACATA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCAG-TACACATA
122143238 GTAACCTGAACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAACCTGCACTTAG
65 GTAACCTGAACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAACCTGCACTTAG
122143303 TACTACACACGTGA
130 TACTACACACGTGA
122143317 CCTCACAATA
Statistics
Matches: 134, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
149 1 0.01
150 133 0.99
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (150 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCAGTACACATAG
TAACCTGAACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAACCTGCACTTAGT
ACTACACACGTGATCGAAGT
Found at i:122143595 original size:27 final size:27
Alignment explanation
Indices: 122143565--122143618 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
122143555 TCATACAACC
* *
122143565 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
122143592 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
122143619 TCACGTGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:122148339 original size:26 final size:26
Alignment explanation
Indices: 122148310--122148362 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
122148300 TCAAACATGC
122148310 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGG-CAATTTAACTCCTAGGGGT
* *
122148336 ATTTCGGCAATTTATCTCCTAGGGGT
1 ATTTAGGCAATTTAACTCCTAGGGGT
122148362 A
1 A
122148363 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (26 bp):
ATTTAGGCAATTTAACTCCTAGGGGT
Found at i:122149885 original size:26 final size:26
Alignment explanation
Indices: 122149849--122149906 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
122149839 CATGAAATTC
122149849 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
122149875 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
122149901 TTATCA
1 TTATCA
122149907 ATTTGTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:122152791 original size:40 final size:39
Alignment explanation
Indices: 122152755--122152861 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
122152745 ATATCCGGAC
*
122152755 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * * *
122152795 TAAGCCCGAAGGCATTTGTACGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
122152834 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
122152862 CTATAACCGG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 33 0.58
40 24 0.42
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:122152862 original size:40 final size:40
Alignment explanation
Indices: 122152761--122152890 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
122152751 GGACTAAGAT
* * *
122152761 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
122152800 CCGAAGGCATTTGTACGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
122152840 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
122152880 CCGAAGGCATT
1 CCGAAGGCATT
122152891 TGAGCAAGTC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.41
40 38 0.47
41 9 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:122155358 original size:26 final size:26
Alignment explanation
Indices: 122155329--122155436 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
122155319 TGATACAAAT
122155329 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
122155355 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
122155381 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
122155407 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
122155433 TGAT
1 TGAT
122155437 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:122159160 original size:28 final size:28
Alignment explanation
Indices: 122159091--122159191 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
122159081 GACAAGATTG
* * * *
122159091 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
122159121 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
122159149 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
122159178 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
122159192 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:122167120 original size:28 final size:28
Alignment explanation
Indices: 122167051--122167151 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
122167041 GACAAGATTG
* * * *
122167051 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
122167081 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
122167109 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
122167138 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
122167152 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:122177814 original size:17 final size:17
Alignment explanation
Indices: 122177794--122177892 Score: 135
Period size: 17 Copynumber: 5.6 Consensus size: 17
122177784 CAATGATATG
122177794 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
122177811 CAATCTTAAATATGATTG
1 CAATCTTAGATATGA-TA
122177829 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
122177846 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
122177864 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
122177883 CAATCTTAGA
1 CAATCTTAGA
122177893 AGATATGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
17 30 0.42
18 30 0.42
19 11 0.15
20 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:122177832 original size:35 final size:35
Alignment explanation
Indices: 122177786--122177890 Score: 174
Period size: 35 Copynumber: 2.9 Consensus size: 35
122177776 ATAATCTTCA
122177786 ATGATATGCAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
122177822 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
122177857 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
122177891 GAAGATATGA
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 50 0.76
36 5 0.08
37 11 0.17
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:122177834 original size:18 final size:18
Alignment explanation
Indices: 122177794--122177892 Score: 148
Period size: 18 Copynumber: 5.6 Consensus size: 18
122177784 CAATGATATG
122177794 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
* *
122177811 CAATCTTAAATATGATTG
1 CAATCTTAGATATGATTA
122177829 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
122177846 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
122177864 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
122177883 CAATCTTAGA
1 CAATCTTAGA
122177893 AGATATGATT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
17 30 0.41
18 32 0.44
19 11 0.15
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:122178399 original size:18 final size:17
Alignment explanation
Indices: 122178375--122178434 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
122178365 CTAATATATT
122178375 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
122178392 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
122178408 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
122178426 TTATATTTT
1 TTATATTTT
122178435 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:122178419 original size:15 final size:16
Alignment explanation
Indices: 122178376--122178434 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
122178366 TAATATATTT
122178376 TATATTTTTTATATAA
1 TATATTTTTTATATAA
122178392 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
122178408 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
122178426 TTATATTTT
1 -TATATTTT
122178435 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:122178459 original size:26 final size:26
Alignment explanation
Indices: 122178411--122178460 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
122178401 TTATAAATAT
* * * *
122178411 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
122178437 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
122178461 TTTTATATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:122180465 original size:16 final size:17
Alignment explanation
Indices: 122180444--122180476 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
122180434 CACATTGAAG
122180444 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
122180460 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
122180477 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:122181388 original size:60 final size:58
Alignment explanation
Indices: 122181262--122181399 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 58
122181252 TTTAGTGTTA
* *
122181262 ACTGGGCCTTAGCCCATATCAATATTAATCTGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGCCATAGCCCATTACAGT-ACAGAGTAT
* * *
122181322 ACTGGGCCTAGCCCATATCAGTATCAATTTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCT-GGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
122181382 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
122181400 TAACACAGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
59 22 0.33
60 38 0.57
61 4 0.06
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (58 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:122181435 original size:19 final size:20
Alignment explanation
Indices: 122181392--122181437 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
122181382 ATTGGGCCTT
122181392 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
122181412 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
122181431 GCCCATA
1 GCCCATA
122181438 ATAAAATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:122182062 original size:8 final size:8
Alignment explanation
Indices: 122182049--122182086 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
122182039 ACAAATGCCT
122182049 GCTTTTCG
1 GCTTTTCG
122182057 GCTTTTCG
1 GCTTTTCG
122182065 GCTTTTCG
1 GCTTTTCG
122182073 GCTTTTCG
1 GCTTTTCG
122182081 GCTTTT
1 GCTTTT
122182087 ACCGATCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.53
Consensus pattern (8 bp):
GCTTTTCG
Found at i:122187957 original size:1 final size:1
Alignment explanation
Indices: 122187951--122188011 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
122187941 CTTCTATTTC
* * * * * * * *
122187951 AAAAAAAAAAGAAAAGAAAAAAAGAAAAAAAAAGAGAAAAAAAAAAGAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
122188012 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:122187972 original size:13 final size:12
Alignment explanation
Indices: 122187951--122188011 Score: 86
Period size: 13 Copynumber: 4.8 Consensus size: 12
122187941 CTTCTATTTC
122187951 AAAAAAAAAAGA
1 AAAAAAAAAAGA
122187963 AAAGAAAAAAAGA
1 AAA-AAAAAAAGA
*
122187976 AAAAAAAAGAGA
1 AAAAAAAAAAGA
122187988 AAAAAAAAAGAGA
1 AAAAAAAAA-AGA
122188001 AAAAAGAAAAA
1 AAAAA-AAAAA
122188012 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
12 19 0.43
13 21 0.48
14 4 0.09
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:122187982 original size:23 final size:22
Alignment explanation
Indices: 122187952--122188011 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 22
122187942 TTCTATTTCA
122187952 AAAAAAAAAGAAAAGAAAAAAAG
1 AAAAAAAAAGAAAA-AAAAAAAG
122187975 AAAAAAAAAGAGAAAAAAAAAAG
1 AAAAAAAAAGA-AAAAAAAAAAG
*
122187998 -AGAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
122188012 TGGAGAGGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 4 0.11
22 9 0.26
23 19 0.54
24 3 0.09
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAAAAAAAG
Found at i:122187988 original size:25 final size:24
Alignment explanation
Indices: 122187951--122188010 Score: 86
Period size: 24 Copynumber: 2.4 Consensus size: 24
122187941 CTTCTATTTC
122187951 AAAAAAAAAAGAAAAGAAAAAA-AG
1 AAAAAAAAAAGAAAA-AAAAAAGAG
122187975 AAAAAAAAAGAGAAAAAAAAAAGAG
1 AAAAAAAAA-AGAAAAAAAAAAGAG
122188000 AAAAAAGAAAA
1 AAAAAA-AAAA
122188011 ATGGAGAGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
24 15 0.45
25 15 0.45
26 3 0.09
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAGAAAAAAAAAAGAG
Found at i:122189031 original size:44 final size:44
Alignment explanation
Indices: 122188886--122189065 Score: 186
Period size: 44 Copynumber: 4.1 Consensus size: 44
122188876 CAAAGAAACA
*
122188886 AGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGT
* * * * * * * * *
122188930 AGATCTGACATTCTTGTGCTTACAGCGAAGCAGATTGAAGAT-TT
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGT
* *
122188974 CAGCA--TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGT
1 -AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGT
* *
122189018 AGATTTGGCATCCCTGTGTTTATAGGGAATAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGT
122189062 AGAT
1 AGAT
122189066 CTAACCTTCA
Statistics
Matches: 108, Mismatches: 22, Indels: 12
0.76 0.15 0.08
Matches are distributed among these distances:
42 1 0.01
43 13 0.12
44 80 0.74
45 13 0.12
46 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGT
Found at i:122189351 original size:119 final size:119
Alignment explanation
Indices: 122189057--122189634 Score: 1047
Period size: 119 Copynumber: 4.9 Consensus size: 119
122189047 TAGATCGAAG
122189057 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
122189122 TT--AAGGAACAAATCGAGGACATAGCAGATTTGACTCT-AGACGTTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
122189173 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
122189238 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
*
122189292 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
122189357 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
122189411 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
122189476 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
122189530 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCA-TCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
122189594 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCA
122189635 AATATTCTCA
Statistics
Matches: 448, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
116 67 0.15
118 80 0.18
119 301 0.67
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:122189686 original size:83 final size:83
Alignment explanation
Indices: 122189571--122189918 Score: 571
Period size: 83 Copynumber: 4.2 Consensus size: 83
122189561 GAAGCAGATC
122189571 CAAGATGGTTTGGCAT-CTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
122189635 AATATTCTCAAACAGACT
66 AATATTCTCAAACAGACT
122189653 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC-
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
122189717 AA-ATTCTC-AACAGACT
66 AATATTCTCAAACAGACT
* *
122189733 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
122189798 AATGTTCTCAAACAGACT
66 AATATTCTCAAACAGACT
* * *
122189816 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC
*
122189881 AAATGTTCTCAAACA-ACT
65 AAATATTCTCAAACAGACT
* *
122189899 CAAGATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
122189919 ACAAATCGAA
Statistics
Matches: 253, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
80 70 0.28
81 8 0.03
82 31 0.12
83 79 0.31
84 65 0.26
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATATTCTCAAACAGACT
Found at i:122190349 original size:35 final size:35
Alignment explanation
Indices: 122190303--122190442 Score: 228
Period size: 35 Copynumber: 3.9 Consensus size: 35
122190293 ATAATCTTCA
122190303 ATGATATGCAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
122190339 ATGATTGCAATCTTAGATATGATACAATCTTAGAA-
1 ATGATTGCAATCTTAGATATGATACAATCTTA-AAT
*
122190374 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
122190409 ATGATTGCAATCTTAGATATGATATGCAATCTTA
1 ATGATTGCAATCTTAGATATGATA--CAATCTTA
122190443 GAAGATATGA
Statistics
Matches: 99, Mismatches: 1, Indels: 7
0.93 0.01 0.07
Matches are distributed among these distances:
34 1 0.01
35 83 0.84
36 7 0.07
37 8 0.08
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Done.