Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 101 of 128
Found at i:33615443 original size:22 final size:23
Alignment explanation
Indices: 33615433--33615488 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
33615423 TTACTAACAA
* * *
33615433 TTAATTTTAAT-AACAATTATTT
1 TTAATTTTAATAAAAAAATAATT
*
33615455 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
33615478 TTAATTTTAAT
1 TTAATTTTAAT
33615489 GCAAAACGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:33619656 original size:683 final size:683
Alignment explanation
Indices: 33618351--33619718 Score: 2077
Period size: 683 Copynumber: 2.0 Consensus size: 683
33618341 TAACTACTGA
* *
33618351 GCAAGAAGAGAAACTCATCCTAGTGTTGAAACAATTCAAGAAGGGTATCAGATGGACCATAGCCG
1 GCAAGAAGAGAAACTCATCCTAGTGTTGAAACAATTCAAGAAGGCTATCAGATGGACCATAGCCA
* * *
33618416 ATATTCGCAGAATTAGTCCATCTATATGCATGCACAAGATTATCTTAGAAAATGACGAAAAGGGT
66 ATATTCACAAAATTAGTCCATCTATATGCATGCACAAGATTATCTTAGAAAATGACGAAAAGAGT
* *
33618481 ACGATTAATGGACAACGAAGACTGAACCCTATCTTGAAGGACGTAGTCAAGAAAGAAATCATCAA
131 ACGATTAATGGACAACGAAGACTGAACCCCATCATGAAGGACGTAGTCAAGAAAGAAATCATCAA
*
33618546 GTGGTTAGATGCGGGTATAATTTACCCCATCTCAGATAGTTCATACGTAAGTCTGATCCAGTGCG
196 GTGGTTAGATGCGGGTATAATTTACCCCATCTCAGATAGTTCATACGTAAGTCAGATCCAGTGCG
* *
33618611 TGCCAAAGAAAAGACGTATCACGGTCATTAAGAAGAAGAATAATGAGTTGATACCGACTAGAACG
261 TGCCAAAGAAAAGACGTATCACGGTCATTAAGAAGAAGAATAACGAGTTGATACCGAATAGAACG
* *
33618676 GTGACGGGATGGAGAATTTGCATCAATTACTAGAAGCTGAACAAGGCAACTAGGAAAGATCACTT
326 GTGACGGGATGGAGAATTTGCATCAATTACGAGAAGCTGAACAAGGCAACTAGAAAAGATCACTT
** *
33618741 TCCTTTGTCGTTTTTGGACCAGATGCTAGATAGACTCGCAGGGCGAGACTATTACTGTTTTCTCG
391 TCCTTTGTCGTTTTTACACCAGATGCTAGATAGACTCGCAGGGCGAGACTATTACTATTTTCTCG
* * * * * * * * *
33618806 ATGGATACTTGGGGTATATTCAGATTATAGTAGCATCGAAAGATCAGCACAAGACAACATTCACC
456 ATGGATACTCGGGGTATAATCAAATTACAGTAGCACCGAAAGATAAACAAAAGAAAACATTCACC
* *
33618871 TGCCCGTATGGTACGCTTTCATTTAGGCACATGCCATTTGATTTATGTAATGCACCTGCTACATT
521 TGCCCGTACGGTACGCTTGCATTTAGGCACATGCCATTTGATTTATGTAATGCACCTGCTACATT
* *
33618936 TCAAAGAAGTATGATGTCTATTTTTACTGACATGGTTGAGAAATATTTGGAAGTTTTTATGGATG
586 TCAAAGAAGTATAATGTCTATTTTTACTGACATGGTTGAGAAATATTTGAAAGTTTTTATGGATG
33619001 ATTTTTCAGTATTCAGAGATACATATGATGATT
651 ATTTTTCAGTATTCAGAGATACATATGATGATT
* * *
33619034 GCAAGAAGAGAAACTCATCCTGGTGTTGAAACAATTCAAGAAGGCTATCGGATGGACCATAGCTA
1 GCAAGAAGAGAAACTCATCCTAGTGTTGAAACAATTCAAGAAGGCTATCAGATGGACCATAGCCA
* * *
33619099 ATATTCACAAAATTAGTCCATCTGTATGCATGCACAAGATTATCTTAGAAGATGGCGAAAAAGAG
66 ATATTCACAAAATTAGTCCATCTATATGCATGCACAAGATTATCTTAGAAAATGACG-AAAAGAG
* * *
33619164 -ACGATTGATGGTCAACGAAGACTGAACCCCATCATGAAGGATGTAGTCAAGAAAGAAATCATCA
130 TACGATTAATGGACAACGAAGACTGAACCCCATCATGAAGGACGTAGTCAAGAAAGAAATCATCA
**
33619228 AGTGGTTAGATGCGGGTATAATTTACCCCATCTCAGATAGTTCATGGGTAAGTCCAG-TCCAGTG
195 AGTGGTTAGATGCGGGTATAATTTACCCCATCTCAGATAGTTCATACGTAAGT-CAGATCCAGTG
* * *
33619292 CGTGCTAAAGAAAAGAGGTATCACGGTCATTGAA-AATG-AGAATAACGATTTGATACCGAATAG
259 CGTGCCAAAGAAAAGACGTATCACGGTCATT-AAGAA-GAAGAATAACGAGTTGATACCGAATAG
* * *
33619355 AACGGTTACGGGATGGAGAATTTGCATCGATTATCGA-AAGCTGAACTAGGCAACTAGAAAAGAT
322 AACGGTGACGGGATGGAGAATTTGCATCAATTA-CGAGAAGCTGAACAAGGCAACTAGAAAAGAT
* *
33619419 CACTTTCCTTTG-CTGTTTTTACACCAGATGCTGGATAGACTCGTAGGGCGAGACTATTACTATT
386 CACTTTCCTTTGTC-GTTTTTACACCAGATGCTAGATAGACTCGCAGGGCGAGACTATTACTATT
*
33619483 TTCTCGATGGGTACTCGGGGTATAATCAAATTACAGTAGCACC-AGAAGATAAACAAAAGAAAAC
450 TTCTCGATGGATACTCGGGGTATAATCAAATTACAGTAGCACCGA-AAGATAAACAAAAGAAAAC
* * * * *
33619547 ATTCACCTTCTCGTACGGTAC-ATCTGCATTTAGGCGCATGCCATTTGGTTTATGTAATGCACCT
514 ATTCACCTGCCCGTACGGTACGCT-TGCATTTAGGCACATGCCATTTGATTTATGTAATGCACCT
* * * *
33619611 GCTACATTTTAAATATGTCTAATGTCTATTTTTACTGACATGGTTGAGAAATATTTGAAAGTTTT
578 GCTACATTTCAAAGAAGTATAATGTCTATTTTTACTGACATGGTTGAGAAATATTTGAAAGTTTT
* *
33619676 TATGGATGATTTTTTAGTATTCGGAGATACATATGATGATT
643 TATGGATGATTTTTCAGTATTCAGAGATACATATGATGATT
33619717 GC
1 GC
33619719 CTAAACAATC
Statistics
Matches: 618, Mismatches: 59, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
682 3 0.00
683 602 0.97
684 13 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (683 bp):
GCAAGAAGAGAAACTCATCCTAGTGTTGAAACAATTCAAGAAGGCTATCAGATGGACCATAGCCA
ATATTCACAAAATTAGTCCATCTATATGCATGCACAAGATTATCTTAGAAAATGACGAAAAGAGT
ACGATTAATGGACAACGAAGACTGAACCCCATCATGAAGGACGTAGTCAAGAAAGAAATCATCAA
GTGGTTAGATGCGGGTATAATTTACCCCATCTCAGATAGTTCATACGTAAGTCAGATCCAGTGCG
TGCCAAAGAAAAGACGTATCACGGTCATTAAGAAGAAGAATAACGAGTTGATACCGAATAGAACG
GTGACGGGATGGAGAATTTGCATCAATTACGAGAAGCTGAACAAGGCAACTAGAAAAGATCACTT
TCCTTTGTCGTTTTTACACCAGATGCTAGATAGACTCGCAGGGCGAGACTATTACTATTTTCTCG
ATGGATACTCGGGGTATAATCAAATTACAGTAGCACCGAAAGATAAACAAAAGAAAACATTCACC
TGCCCGTACGGTACGCTTGCATTTAGGCACATGCCATTTGATTTATGTAATGCACCTGCTACATT
TCAAAGAAGTATAATGTCTATTTTTACTGACATGGTTGAGAAATATTTGAAAGTTTTTATGGATG
ATTTTTCAGTATTCAGAGATACATATGATGATT
Found at i:33622603 original size:192 final size:192
Alignment explanation
Indices: 33622276--33622661 Score: 772
Period size: 192 Copynumber: 2.0 Consensus size: 192
33622266 TCTATTATAA
33622276 TAAATATTAATTATTATCAGCTTTATTAAGAGTTAGGATTAGTTTTAATTTCATCATATTTTATT
1 TAAATATTAATTATTATCAGCTTTATTAAGAGTTAGGATTAGTTTTAATTTCATCATATTTTATT
33622341 CGATAAGTTTTTATCTTAATAAATTAGTAGCAAATAATAATTTAATATGCATTATATTAATCATT
66 CGATAAGTTTTTATCTTAATAAATTAGTAGCAAATAATAATTTAATATGCATTATATTAATCATT
33622406 AATTGTTATTTACTTTGAGTAGAATTAGAACTTAGAATTTTTAAGAATTCTACTCTAGCTCC
131 AATTGTTATTTACTTTGAGTAGAATTAGAACTTAGAATTTTTAAGAATTCTACTCTAGCTCC
33622468 TAAATATTAATTATTATCAGCTTTATTAAGAGTTAGGATTAGTTTTAATTTCATCATATTTTATT
1 TAAATATTAATTATTATCAGCTTTATTAAGAGTTAGGATTAGTTTTAATTTCATCATATTTTATT
33622533 CGATAAGTTTTTATCTTAATAAATTAGTAGCAAATAATAATTTAATATGCATTATATTAATCATT
66 CGATAAGTTTTTATCTTAATAAATTAGTAGCAAATAATAATTTAATATGCATTATATTAATCATT
33622598 AATTGTTATTTACTTTGAGTAGAATTAGAACTTAGAATTTTTAAGAATTCTACTCTAGCTCC
131 AATTGTTATTTACTTTGAGTAGAATTAGAACTTAGAATTTTTAAGAATTCTACTCTAGCTCC
33622660 TA
1 TA
33622662 CTCCTTTCAC
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
192 194 1.00
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (192 bp):
TAAATATTAATTATTATCAGCTTTATTAAGAGTTAGGATTAGTTTTAATTTCATCATATTTTATT
CGATAAGTTTTTATCTTAATAAATTAGTAGCAAATAATAATTTAATATGCATTATATTAATCATT
AATTGTTATTTACTTTGAGTAGAATTAGAACTTAGAATTTTTAAGAATTCTACTCTAGCTCC
Found at i:33625950 original size:21 final size:20
Alignment explanation
Indices: 33625905--33625950 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
33625895 TTTTCGGAAT
33625905 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
33625924 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
33625945 GGTTGA
1 GGTTGA
33625951 TTGCATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:33627488 original size:20 final size:19
Alignment explanation
Indices: 33627448--33627490 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
33627438 ATTGAACTTG
*
33627448 AAAATTGGACTAGAGATCA
1 AAAATTGGACTAGAGACCA
33627467 AAAATTGGAACTA-AGAACCA
1 AAAATTGG-ACTAGAG-ACCA
33627487 AAAA
1 AAAA
33627491 CTGAGATCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (19 bp):
AAAATTGGACTAGAGACCA
Found at i:33627489 original size:19 final size:19
Alignment explanation
Indices: 33627448--33627490 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
33627438 ATTGAACTTG
*
33627448 AAAATTGGACTAGAGATCA
1 AAAATTGGACTAGAGAACA
33627467 AAAATTGGAACTA-AGAACCA
1 AAAATTGG-ACTAGAGAA-CA
33627487 AAAA
1 AAAA
33627491 CTGAGATCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (19 bp):
AAAATTGGACTAGAGAACA
Found at i:33628807 original size:14 final size:14
Alignment explanation
Indices: 33628790--33628816 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33628780 TATTTTCTAT
33628790 TTCTATTTTTTTTC
1 TTCTATTTTTTTTC
33628804 TTCTATTTTTTTT
1 TTCTATTTTTTTT
33628817 TTGGTTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (14 bp):
TTCTATTTTTTTTC
Found at i:33628807 original size:20 final size:19
Alignment explanation
Indices: 33628769--33628811 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
33628759 TTTAGTTTGG
*
33628769 ATTTTTATTTTTATTTTCT
1 ATTTCTATTTTTATTTTCT
*
33628788 ATTTCTATTTTTTTTCTTCT
1 ATTTCTATTTTTATT-TTCT
33628808 ATTT
1 ATTT
33628812 TTTTTTTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (19 bp):
ATTTCTATTTTTATTTTCT
Found at i:33630178 original size:83 final size:83
Alignment explanation
Indices: 33630032--33630192 Score: 198
Period size: 83 Copynumber: 1.9 Consensus size: 83
33630022 TGATCTGATC
* * * * * * *
33630032 TGGTAGTTTAATAGCAACATATTTGTATAGCGGTTTATCGCAATGCAATGTACTGTATCTACGTC
1 TGGTAGTTTAATAGCAACATATCTATACAGCGGTTTACCACAATGCAATGTACTGCATATACGTC
*
33630097 AAATTTGTTGCGTTTGTT
66 AAATTTGCTGCGTTTGTT
* *
33630115 TGGTAGTTTAACT-GCAACATATCTATACAGTGGTTTACCACAATGCATTGTACTGCATATACGT
1 TGGTAGTTTAA-TAGCAACATATCTATACAGCGGTTTACCACAATGCAATGTACTGCATATACGT
* *
33630179 TAACTTTGCTGCGT
65 CAAATTTGCTGCGT
33630193 ATTATTATCT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
83 64 0.98
84 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (83 bp):
TGGTAGTTTAATAGCAACATATCTATACAGCGGTTTACCACAATGCAATGTACTGCATATACGTC
AAATTTGCTGCGTTTGTT
Found at i:33631364 original size:72 final size:72
Alignment explanation
Indices: 33631275--33631418 Score: 261
Period size: 72 Copynumber: 2.0 Consensus size: 72
33631265 TATTCAAAGG
*
33631275 ATTCACAATGACCAGTTAATTTAATTTCATTTTCGAACTTCAATTGTTTACTTAAATAATAATTC
1 ATTCACAATGACCAGTTAATTTAATTTCATTTTCAAACTTCAATTGTTTACTTAAATAATAATTC
33631340 GAAAAAC
66 GAAAAAC
* *
33631347 ATTCACAATGACTAGTTAATTTAATTTCATTTTCAAACTTCAATTTTTTACTTAAATAATAATTC
1 ATTCACAATGACCAGTTAATTTAATTTCATTTTCAAACTTCAATTGTTTACTTAAATAATAATTC
33631412 GAAAAAC
66 GAAAAAC
33631419 TTAACTTAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (72 bp):
ATTCACAATGACCAGTTAATTTAATTTCATTTTCAAACTTCAATTGTTTACTTAAATAATAATTC
GAAAAAC
Found at i:33633644 original size:50 final size:50
Alignment explanation
Indices: 33633550--33633783 Score: 211
Period size: 50 Copynumber: 4.6 Consensus size: 50
33633540 GATCCCATAA
* * *
33633550 AAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCTCATGT
1 AAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCCATGT
**
33633606 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCGT
1 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGT
* * * **
33633656 AAGACCATGCCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGT
1 AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGT
* * * * * **
33633706 AAGACCATATCTGGGATATGGCATTGGCA--GTACAAGAAACATCCCATGT
1 AAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCCCATGT
* * *
33633755 AATACCATGTCTGGGACATGACTTTGGCA
1 AAGACCATGTCTGGGACATGGCATTGGCA
33633784 TGTTATTATC
Statistics
Matches: 151, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.25
50 81 0.54
53 3 0.02
55 1 0.01
56 28 0.19
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGT
Found at i:33643284 original size:32 final size:33
Alignment explanation
Indices: 33643248--33643335 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
33643238 AACTTTTCCG
*
33643248 GAAAATATTTT-CAGGAAATC-TGCCAAACAACA
1 GAAAATATTTTACAGCAAATCAT-CCAAACAACA
* *
33643280 GAAAATATTTTACA-CAGATTCATCCAAACACCA
1 GAAAATATTTTACAGCA-AATCATCCAAACAACA
* *
33643313 GAAAATATTTTCCAGTAAATCAT
1 GAAAATATTTTACAGCAAATCAT
33643336 TTTCCAGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 12 0.26
33 32 0.70
34 2 0.04
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACAGCAAATCATCCAAACAACA
Found at i:33643332 original size:14 final size:15
Alignment explanation
Indices: 33643310--33643386 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
33643300 CATCCAAACA
33643310 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
33643324 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
33643339 CCAGAAAAGTAAATCATATT
1 CCAG---A--AAATCATTTT
33643359 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
33643373 CC-GAAAAACATTTT
1 CCAGAAAATCATTTT
33643387 ACTGTCAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
13 1 0.02
14 28 0.55
15 9 0.18
20 13 0.25
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:33643351 original size:20 final size:20
Alignment explanation
Indices: 33643326--33643365 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33643316 AATATTTTCC
*
33643326 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATATTCCAGAAA
33643346 AGTAAATCATATTCCAGAAA
1 AGTAAATCATATTCCAGAAA
33643366 TCATTTTCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAATCATATTCCAGAAA
Found at i:33646567 original size:11 final size:11
Alignment explanation
Indices: 33646553--33646578 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33646543 TCCGGCCAGG
33646553 GGCCGGTCATC
1 GGCCGGTCATC
33646564 GGCCGGTCATC
1 GGCCGGTCATC
33646575 GGCC
1 GGCC
33646579 ACCACGCCGG
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:0.08, C:0.38, G:0.38, T:0.15
Consensus pattern (11 bp):
GGCCGGTCATC
Found at i:33657966 original size:28 final size:28
Alignment explanation
Indices: 33657926--33657980 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
33657916 ATAAGTGGGA
33657926 GATCCAACACTTAATGCATGTTATATTT
1 GATCCAACACTTAATGCATGTTATATTT
* **
33657954 GATCCAACGCTTAATGTGTGTTATATT
1 GATCCAACACTTAATGCATGTTATATT
33657981 GCAATAGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (28 bp):
GATCCAACACTTAATGCATGTTATATTT
Found at i:33658880 original size:21 final size:21
Alignment explanation
Indices: 33658842--33658881 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33658832 TAATAATGTC
*
33658842 TCAAAACATTAAGAACATACA
1 TCAAAACATCAAGAACATACA
* *
33658863 TCAAAACCTCAAGTACATA
1 TCAAAACATCAAGAACATA
33658882 ATTAATTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.23, G:0.05, T:0.20
Consensus pattern (21 bp):
TCAAAACATCAAGAACATACA
Found at i:33658960 original size:68 final size:68
Alignment explanation
Indices: 33658870--33659017 Score: 248
Period size: 68 Copynumber: 2.2 Consensus size: 68
33658860 ACATCAAAAC
* *
33658870 CTCAAG-T-ACATAATTAATTATTTGGAGCATATCGCAAATTTTGGTCTTGAGAGTAAACAAACA
1 CTCAAGATAACATGATTAATTATTTGGAGCATATCGCAAATTTTGGTCTTGAGACTAAACAAACA
33658933 AAT
66 AAT
*
33658936 CTCAAGATAACATGATTAATTATTTGGTGCATATCGCAAATTTTGGTCTTGAGACTAAACAAACA
1 CTCAAGATAACATGATTAATTATTTGGAGCATATCGCAAATTTTGGTCTTGAGACTAAACAAACA
33659001 AAT
66 AAT
33659004 CTC-AGATAACATGA
1 CTCAAGATAACATGA
33659018 CTCAAATCTC
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
66 6 0.08
67 12 0.16
68 59 0.77
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (68 bp):
CTCAAGATAACATGATTAATTATTTGGAGCATATCGCAAATTTTGGTCTTGAGACTAAACAAACA
AAT
Found at i:33659226 original size:35 final size:35
Alignment explanation
Indices: 33659180--33659247 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
33659170 CCTAATTGCA
33659180 TTAAATAATATCATTTGAGATTTGTTAAACATGCG
1 TTAAATAATATCATTTGAGATTTGTTAAACATGCG
33659215 TTAAATAATATCATTTGAGATTTGTTAAACATG
1 TTAAATAATATCATTTGAGATTTGTTAAACATG
33659248 TTTATGTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.41
Consensus pattern (35 bp):
TTAAATAATATCATTTGAGATTTGTTAAACATGCG
Found at i:33677141 original size:81 final size:82
Alignment explanation
Indices: 33677045--33677207 Score: 319
Period size: 81 Copynumber: 2.0 Consensus size: 82
33677035 GTTATTGAGA
33677045 ATCCATTGCATGTAGAAATTAAATATATTTTCTTATAGATTCTTTTACAGTAAAGTTGTTATAAC
1 ATCCATTGCATGTAGAAATTAAATATATTTTCTTATAGATTCTTTTACAGTAAAGTTGTTATAAC
33677110 TTTAATGGAATTAGAAT
66 TTTAATGGAATTAGAAT
33677127 ATCCATTGCA-GTAGAAATTAAATATATTTTCTTATAGATTCTTTTACAGTAAAGTTGTTATAAC
1 ATCCATTGCATGTAGAAATTAAATATATTTTCTTATAGATTCTTTTACAGTAAAGTTGTTATAAC
33677191 TTTAATGGAATTAGAAT
66 TTTAATGGAATTAGAAT
33677208 CGGTTGAGAA
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 71 0.88
82 10 0.12
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (82 bp):
ATCCATTGCATGTAGAAATTAAATATATTTTCTTATAGATTCTTTTACAGTAAAGTTGTTATAAC
TTTAATGGAATTAGAAT
Found at i:33680808 original size:25 final size:25
Alignment explanation
Indices: 33680727--33680842 Score: 105
Period size: 25 Copynumber: 4.6 Consensus size: 25
33680717 GCGGACACAC
33680727 CACAGCTCGTATGAGCTTACCAAGTT
1 CACAGCTCGTATGAGCTTACCAA-TT
* * *
33680753 -GCAGCACGTGA-GAGCTTACCGATT
1 CACAGCTCGT-ATGAGCTTACCAATT
*
33680777 CCCAGCTCGTATGAGCTTACCAATT
1 CACAGCTCGTATGAGCTTACCAATT
*
33680802 CACAGCTTGCG-A-GAGCATACCAATT
1 CACAGC-T-CGTATGAGCTTACCAATT
* *
33680827 CATAGCTCTTATGAGC
1 CACAGCTCGTATGAGC
33680843 ATACATGTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
23 1 0.01
24 5 0.07
25 62 0.85
26 3 0.04
27 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACCAATT
Found at i:33680816 original size:50 final size:50
Alignment explanation
Indices: 33680727--33680842 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 50
33680717 GCGGACACAC
* * * *
33680727 CACAGCTCGTATGAGCTTACCAAGTTGCAGCACGTGAGAGCTTACCGATT
1 CACAGCTCGTATGAGCTTACCAAGTTACAGCACGCGAGAGCATACCAATT
* **
33680777 CCCAGCTCGTATGAGCTTACCAA-TTCACAGCTTGCGAGAGCATACCAATT
1 CACAGCTCGTATGAGCTTACCAAGTT-ACAGCACGCGAGAGCATACCAATT
* *
33680827 CATAGCTCTTATGAGC
1 CACAGCTCGTATGAGC
33680843 ATACATGTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 2 0.04
50 53 0.96
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (50 bp):
CACAGCTCGTATGAGCTTACCAAGTTACAGCACGCGAGAGCATACCAATT
Found at i:33686481 original size:16 final size:16
Alignment explanation
Indices: 33686460--33686494 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
33686450 TTTGGTTCGC
33686460 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAAG
*
33686476 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAAG
33686492 TGT
1 TGT
33686495 CATAGCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAAG
Found at i:33686911 original size:24 final size:27
Alignment explanation
Indices: 33686860--33686912 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
33686850 TATATGTAAT
*
33686860 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
33686887 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
33686911 AT
1 AT
33686913 GCGGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:33689836 original size:25 final size:25
Alignment explanation
Indices: 33689781--33689862 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
33689771 GCGGACACAC
33689781 CACAGCTCGTATGAGCTTACCAAGTT
1 CACAGCTCGTATGAGCTTACCAA-TT
* *
33689807 -GCAGCTCGTGA-GAGCTTACCGATT
1 CACAGCTCGT-ATGAGCTTACCAATT
* *
33689831 CTCAGCTCGTATGAGCTTACAAATT
1 CACAGCTCGTATGAGCTTACCAATT
33689856 CACAGCT
1 CACAGCT
33689863 TGTGAGAGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
24 3 0.06
25 43 0.91
26 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACCAATT
Found at i:33689862 original size:50 final size:50
Alignment explanation
Indices: 33689783--33689901 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
33689773 GGACACACCA
* * *
33689783 CAGCTCGTATGAGCTTACCAAGTTGCAGCTCGTGAGAGCTTACCGATTC-T
1 CAGCTCGTATGAGCTTA-CAAATTACAGCTCGTGAGAGCATACCGATTCAT
* *
33689833 CAGCTCGTATGAGCTTACAAATTCACAGCTTGTGAGAGCATATCGATTCAT
1 CAGCTCGTATGAGCTTACAAATT-ACAGCTCGTGAGAGCATACCGATTCAT
* *
33689884 -AGCTCTTATGAGCATACA
1 CAGCTCGTATGAGCTTACA
33689902 TGTACATGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
49 5 0.08
50 54 0.90
51 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACAAATTACAGCTCGTGAGAGCATACCGATTCAT
Found at i:33691680 original size:20 final size:20
Alignment explanation
Indices: 33691657--33691718 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
33691647 ATACTTTCGA
33691657 TTTAATCCATAAACTTACAG
1 TTTAATCCATAAACTTACAG
* * *
33691677 TTT-AT--TTAATACTTTCAA
1 TTTAATCCATAA-ACTTACAG
33691695 TTTAATCCATAAACTTACAG
1 TTTAATCCATAAACTTACAG
33691715 TTTA
1 TTTA
33691719 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 3 0.09
18 9 0.28
19 4 0.12
20 13 0.41
21 3 0.09
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (20 bp):
TTTAATCCATAAACTTACAG
Found at i:33691689 original size:38 final size:38
Alignment explanation
Indices: 33691647--33691723 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
33691637 CTAAATTGAG
*
33691647 ATACTTTCGATTTAATCCATAAACTTACAGTTTATTTA
1 ATACTTTCAATTTAATCCATAAACTTACAGTTTATTTA
33691685 ATACTTTCAATTTAATCCATAAACTTACAGTTTATTTA
1 ATACTTTCAATTTAATCCATAAACTTACAGTTTATTTA
33691723 A
1 A
33691724 AATTACTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (38 bp):
ATACTTTCAATTTAATCCATAAACTTACAGTTTATTTA
Found at i:33695534 original size:43 final size:43
Alignment explanation
Indices: 33695485--33695664 Score: 150
Period size: 43 Copynumber: 4.2 Consensus size: 43
33695475 GGCACTACAA
* *
33695485 TGCATCATCAGATAAACTGAAGGAA-ATATATTGGCACGCATAG
1 TGCATCATCAGATAAACCGAA-GAATATATACTGGCACGCATAG
** * * *
33695528 TGCATCATCAGATGTACCGAACAATGTATACTGGCACTCATAG
1 TGCATCATCAGATAAACCGAAGAATATATACTGGCACGCATAG
* * * * * *
33695571 TGTATCATCAAACAAGCTGAAGAA-ATTATACTGGCATGCATAG
1 TGCATCATCAGATAAACCGAAGAATA-TATACTGGCACGCATAG
* * * * * *
33695614 TGCATCATCGGATATACCGAAGAATGTATATTGAC-CTCATAG
1 TGCATCATCAGATAAACCGAAGAATATATACTGGCACGCATAG
33695656 TGCATCATC
1 TGCATCATC
33695665 GGACAAGTCG
Statistics
Matches: 104, Mismatches: 30, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
42 16 0.15
43 88 0.85
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (43 bp):
TGCATCATCAGATAAACCGAAGAATATATACTGGCACGCATAG
Found at i:33695618 original size:86 final size:86
Alignment explanation
Indices: 33695485--33695797 Score: 319
Period size: 86 Copynumber: 3.7 Consensus size: 86
33695475 GGCACTACAA
* * ** * * * * *
33695485 TGCATCATCAGATAAACTGAAGGAAATATATTGGCACGCATAGTGCATCATCAGATGTACCGAAC
1 TGCATCATCAGACAAGCTGAAACAATTATACTGGCATGCATAGTGCATCATCGGATGTACCGAAA
* *
33695550 AATGTATACTGGCACTCATAG
66 AATGTATATTGACACTCATAG
* * *
33695571 TGTATCATCAAACAAGCTGAAGA-AATTATACTGGCATGCATAGTGCATCATCGGATATACCGAA
1 TGCATCATCAGACAAGCTGAA-ACAATTATACTGGCATGCATAGTGCATCATCGGATGTACCGAA
*
33695635 GAATGTATATTGAC-CTCATAG
65 AAATGTATATTGACACTCATAG
* * * * *
33695656 TGCATCATCGGACAAG-TCGAAACAATTATACTGACATACATAGCGCATCATCGGATGTATCGAA
1 TGCATCATCAGACAAGCT-GAAACAATTATACTGGCATGCATAGTGCATCATCGGATGTACCGAA
*
33695720 AAATGTATATT-ATCACTCATAA
65 AAATGTATATTGA-CACTCATAG
* * * *** *
33695742 TGCATCATTAGACAAGCCGAAACAATTATATTGGCACATATAGTGTATCATCGGAT
1 TGCATCATCAGACAAGCTGAAACAATTATACTGGCATGCATAGTGCATCATCGGAT
33695798 AAATCAAAGC
Statistics
Matches: 189, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
84 3 0.02
85 70 0.37
86 116 0.61
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (86 bp):
TGCATCATCAGACAAGCTGAAACAATTATACTGGCATGCATAGTGCATCATCGGATGTACCGAAA
AATGTATATTGACACTCATAG
Found at i:33695719 original size:43 final size:42
Alignment explanation
Indices: 33695523--33695728 Score: 159
Period size: 43 Copynumber: 4.8 Consensus size: 42
33695513 TATTGGCACG
* * * * *
33695523 CATAGTGCATCATCAGATGTACCGAACAATGTATACTGGCACT
1 CATAGTGCATCATCGGATATATCGAAAAATGTATACTGACA-T
* ** * * *
33695566 CATAGTGTATCATCAAACA-AGCTGAAGAAAT-TATACTGGCAT
1 CATAGTGCATCATCGGATATATC-GAA-AAATGTATACTGACAT
* * * *
33695608 GCATAGTGCATCATCGGATATACCGAAGAATGTATATTGACCT
1 -CATAGTGCATCATCGGATATATCGAAAAATGTATACTGACAT
*
33695651 CATAGTGCATCATCGGACA-AGTCGAAACAAT-TATACTGACAT
1 CATAGTGCATCATCGGATATA-TCGAAA-AATGTATACTGACAT
* *
33695693 ACATAGCGCATCATCGGATGTATCGAAAAATGTATA
1 -CATAGTGCATCATCGGATATATCGAAAAATGTATA
33695729 TTATCACTCA
Statistics
Matches: 130, Mismatches: 23, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 40 0.31
43 83 0.64
44 6 0.05
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (42 bp):
CATAGTGCATCATCGGATATATCGAAAAATGTATACTGACAT
Found at i:33695747 original size:43 final size:42
Alignment explanation
Indices: 33695609--33695749 Score: 137
Period size: 43 Copynumber: 3.3 Consensus size: 42
33695599 TACTGGCATG
* *
33695609 CATAGTGCATCATCGGATATACCGAAGAATGTATATTGAC-CT
1 CATAGTGCATCATCGGATATATCGAAAAATGTATATT-ACACT
* *
33695651 CATAGTGCATCATCGGACA-AGTCGAAACAAT-TATACTGACA-T
1 CATAGTGCATCATCGGATATA-TCGAAA-AATGTATA-TTACACT
* *
33695693 ACATAGCGCATCATCGGATGTATCGAAAAATGTATATTATCACT
1 -CATAGTGCATCATCGGATATATCGAAAAATGTATATTA-CACT
*
33695737 CATAATGCATCAT
1 CATAGTGCATCAT
33695750 TAGACAAGCC
Statistics
Matches: 80, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
41 1 0.01
42 34 0.43
43 43 0.54
44 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (42 bp):
CATAGTGCATCATCGGATATATCGAAAAATGTATATTACACT
Found at i:33700903 original size:34 final size:34
Alignment explanation
Indices: 33700860--33700929 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
33700850 CGTTTTTTTA
*
33700860 AGTGTTAGGGTTTTGTTTATTTAAATTAGGGTTT
1 AGTGTTAGGGTTTTGTTTATTTAAAGTAGGGTTT
33700894 AGTGTTAGGGTTTTGTTTATTTAAAGTAGGGTTT
1 AGTGTTAGGGTTTTGTTTATTTAAAGTAGGGTTT
33700928 AG
1 AG
33700930 GGATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (34 bp):
AGTGTTAGGGTTTTGTTTATTTAAAGTAGGGTTT
Found at i:33704134 original size:42 final size:42
Alignment explanation
Indices: 33704083--33704250 Score: 336
Period size: 42 Copynumber: 4.0 Consensus size: 42
33704073 GGTACTCATC
33704083 GCCACTCACAGGGTATCTAAACGAGCCATCAGATTTGGTGTT
1 GCCACTCACAGGGTATCTAAACGAGCCATCAGATTTGGTGTT
33704125 GCCACTCACAGGGTATCTAAACGAGCCATCAGATTTGGTGTT
1 GCCACTCACAGGGTATCTAAACGAGCCATCAGATTTGGTGTT
33704167 GCCACTCACAGGGTATCTAAACGAGCCATCAGATTTGGTGTT
1 GCCACTCACAGGGTATCTAAACGAGCCATCAGATTTGGTGTT
33704209 GCCACTCACAGGGTATCTAAACGAGCCATCAGATTTGGTGTT
1 GCCACTCACAGGGTATCTAAACGAGCCATCAGATTTGGTGTT
33704251 TGAATGCTTG
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 126 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (42 bp):
GCCACTCACAGGGTATCTAAACGAGCCATCAGATTTGGTGTT
Found at i:33704883 original size:25 final size:25
Alignment explanation
Indices: 33704849--33704898 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33704839 CCACCCTAAG
33704849 AATAGCTAATAGAATTGACTTCTAC
1 AATAGCTAATAGAATTGACTTCTAC
33704874 AATAGCTAATAGAATTGACTTCTAC
1 AATAGCTAATAGAATTGACTTCTAC
33704899 CGAGTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (25 bp):
AATAGCTAATAGAATTGACTTCTAC
Found at i:33705151 original size:126 final size:126
Alignment explanation
Indices: 33704926--33705155 Score: 379
Period size: 126 Copynumber: 1.8 Consensus size: 126
33704916 CACTAACAAA
* *
33704926 GGTATTGGCATTTGTTATCGGTACACAGGAATCCTTAAATATTTTCCCAAATCTTCTGTCTGTTG
1 GGTATCGGCATTTGTTATCGGAACACAGGAATCCTTAAATATTTTCCCAAATCTTCTGTCTGTTG
33704991 AAAACCCAACTTGCTTGTAACATGACTCCACAATGATTCCAAACTTTGTCAAAAATGAATT
66 AAAACCCAACTTGCTTGTAACATGACTCCACAATGATTCCAAACTTTGTCAAAAATGAATT
* * * *
33705052 GGTATCGGCATTTGTTATTGGAATAGAGGAATCCTTAAATATTTTCCCAAATCTTCTGTTTGTTG
1 GGTATCGGCATTTGTTATCGGAACACAGGAATCCTTAAATATTTTCCCAAATCTTCTGTCTGTTG
* **
33705117 AAAACCCAACTTGCTTGTAACTTGACTCTTCAATGATTC
66 AAAACCCAACTTGCTTGTAACATGACTCCACAATGATTC
33705156 ACACGTGTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 95 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (126 bp):
GGTATCGGCATTTGTTATCGGAACACAGGAATCCTTAAATATTTTCCCAAATCTTCTGTCTGTTG
AAAACCCAACTTGCTTGTAACATGACTCCACAATGATTCCAAACTTTGTCAAAAATGAATT
Found at i:33708606 original size:35 final size:35
Alignment explanation
Indices: 33708520--33708618 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
33708510 GGTGACCGAT
*
33708520 AAAAATATAAGGATGACGAATGTGGCAACCCAACC
1 AAAAATATAAGGATGACGAATGTGGCGACCCAACC
* * * * * *
33708555 AGAAACATGAGAATGACGGATGTGGCGGCCCAACC
1 AAAAATATAAGGATGACGAATGTGGCGACCCAACC
* *
33708590 AAAAATATAAGGATGACGCATATGGCGAC
1 AAAAATATAAGGATGACGAATGTGGCGAC
33708619 TTGGCCAGAA
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.14
Consensus pattern (35 bp):
AAAAATATAAGGATGACGAATGTGGCGACCCAACC
Found at i:33708675 original size:35 final size:35
Alignment explanation
Indices: 33708612--33708700 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 35
33708602 ATGACGCATA
* * *
33708612 TGGCGACTTGGCCAGAAACATAAAGATGATAGG-TG
1 TGGCGACTCGGCCAGAAATACAAAGATGAT-GGATG
* *
33708647 TGGCGACTCGGCCAGAAATACGAGGATGATGGATG
1 TGGCGACTCGGCCAGAAATACAAAGATGATGGATG
* * *
33708682 TGGTGAGTCGGCCAAAAAT
1 TGGCGACTCGGCCAGAAAT
33708701 GTAACACCCC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
34 2 0.04
35 43 0.96
ACGTcount: A:0.31, C:0.16, G:0.34, T:0.19
Consensus pattern (35 bp):
TGGCGACTCGGCCAGAAATACAAAGATGATGGATG
Found at i:33709085 original size:18 final size:17
Alignment explanation
Indices: 33709054--33709110 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
33709044 CTCATAACAA
33709054 CATAA-AACATGAGTTCG
1 CATAATAACA-GAGTTCG
*
33709071 CATAATAACACGAGTTCA
1 CATAATAACA-GAGTTCG
* *
33709089 CAAAATATCAGAGGTTCG
1 CATAATAACAGA-GTTCG
33709107 CATA
1 CATA
33709111 CTACATAAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 7 0.22
18 25 0.78
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (17 bp):
CATAATAACAGAGTTCG
Found at i:33713079 original size:23 final size:23
Alignment explanation
Indices: 33713042--33713092 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
33713032 GTGTGAGACA
33713042 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
33713065 TGTAATA-CCCAGAAAATTACTAC
1 TGTAATATCCC-GAAAATTACTAC
*
33713088 AGTAA
1 TGTAA
33713093 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:33719540 original size:35 final size:35
Alignment explanation
Indices: 33719501--33719582 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
33719491 AGGACAATGA
* * *
33719501 GTGTGGTTACCCAACCATAAACATGAA-GATGACGG
1 GTGTGGTAACCCAACCAGAAACA-CAATGATGACGG
**
33719536 GTGTGACAACCCAACCAGAAACACAATGATGACGG
1 GTGTGGTAACCCAACCAGAAACACAATGATGACGG
*
33719571 GTGTGGTGACCC
1 GTGTGGTAACCC
33719583 GATTAGAAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
34 2 0.05
35 36 0.95
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (35 bp):
GTGTGGTAACCCAACCAGAAACACAATGATGACGG
Found at i:33724683 original size:19 final size:21
Alignment explanation
Indices: 33724650--33724691 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
33724640 ATAAATATTC
33724650 AAAATATTTTAAAAAAATTAA
1 AAAATATTTTAAAAAAATTAA
*
33724671 AAAATA-TTT-AAAATATTAA
1 AAAATATTTTAAAAAAATTAA
33724690 AA
1 AA
33724692 TTTATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 3 0.15
21 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATTTTAAAAAAATTAA
Found at i:33724701 original size:19 final size:19
Alignment explanation
Indices: 33724638--33724713 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
33724628 TAGTATTAAA
33724638 ATAT-AAATATTCAAAATATT
1 ATATAAAATATT-AAAAT-TT
* * **
33724658 TTA-AAAAAATTAAAAAAT
1 ATATAAAATATTAAAATTT
*
33724676 ATTTAAAATATTAAAATTT
1 ATATAAAATATTAAAATTT
*
33724695 ATATAAAATTATAAAAATT
1 ATATAAAA-TATTAAAATT
33724714 ATAAAATAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
18 2 0.05
19 23 0.55
20 17 0.40
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATAAAATATTAAAATTT
Found at i:33724713 original size:9 final size:9
Alignment explanation
Indices: 33724662--33724719 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
33724652 AATATTTTAA
33724662 AAAAATTA-
1 AAAAATTAT
33724670 AAAAA-TATT
1 AAAAATTA-T
*
33724679 TAAAA-TATT
1 AAAAATTA-T
*
33724688 AAAATTTAT
1 AAAAATTAT
33724697 ATAAAATTAT
1 A-AAAATTAT
33724707 AAAAATTAT
1 AAAAATTAT
33724716 AAAA
1 AAAA
33724720 TAATANNNNN
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
7 2 0.05
8 5 0.12
9 25 0.60
10 10 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:33724715 original size:19 final size:19
Alignment explanation
Indices: 33724663--33724716 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
33724653 ATATTTTAAA
*
33724663 AAAATTA-AAAAA-TATTT
1 AAAATTATAAAAATTATAT
*
33724680 AAAA-TATTAAAATTTATAT
1 AAAATTA-TAAAAATTATAT
33724699 AAAATTATAAAAATTATA
1 AAAATTATAAAAATTATA
33724717 AAATAATANN
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 2 0.07
17 4 0.13
18 4 0.13
19 18 0.60
20 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTATAAAAATTATAT
Found at i:33726222 original size:10 final size:10
Alignment explanation
Indices: 33726207--33726251 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
33726197 TACTTTTATG
33726207 ATTTTTAATA
1 ATTTTTAATA
33726217 ATTTTTAATA
1 ATTTTTAATA
*
33726227 ATTTTTATAAA
1 ATTTTTA-ATA
*
33726238 ATTTTAAAT-
1 ATTTTTAATA
33726247 ATTTT
1 ATTTT
33726252 AAACATGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 5 0.16
10 18 0.58
11 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:33733274 original size:30 final size:30
Alignment explanation
Indices: 33733240--33733308 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
33733230 AATTAATTCG
33733240 GTTAACCGACCGATTAACTGAATTCGATCA
1 GTTAACCGACCGATTAACTGAATTCGATCA
33733270 GTTAACCGACCGATTAACTGAATTCGATCA
1 GTTAACCGACCGATTAACTGAATTCGATCA
33733300 GTTAACCGA
1 GTTAACCGA
33733309 ATTAATTTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (30 bp):
GTTAACCGACCGATTAACTGAATTCGATCA
Found at i:33733436 original size:18 final size:18
Alignment explanation
Indices: 33733413--33733448 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33733403 GAAAAAAAAG
33733413 TTTATATTATATTATAAA
1 TTTATATTATATTATAAA
33733431 TTTATATTATATTATAAA
1 TTTATATTATATTATAAA
33733449 AAGGATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATATTATATTATAAA
Found at i:33736504 original size:4 final size:4
Alignment explanation
Indices: 33736495--33736536 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
33736485 AAAAACTAAA
33736495 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
33736537 GTGTGTGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:33741243 original size:27 final size:27
Alignment explanation
Indices: 33741205--33741256 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
33741195 TTTGGGGTTA
*
33741205 GTAGAAATAACTAGTGTTTATAAGTAT
1 GTAGAAATAACTAGTGCTTATAAGTAT
33741232 GTAGAAATAACTAGTGCTTATAAGT
1 GTAGAAATAACTAGTGCTTATAAGT
33741257 CTACTAGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (27 bp):
GTAGAAATAACTAGTGCTTATAAGTAT
Found at i:33758065 original size:50 final size:51
Alignment explanation
Indices: 33757953--33758089 Score: 163
Period size: 50 Copynumber: 2.7 Consensus size: 51
33757943 GGTAAAGAGG
* * **
33757953 TCCCATGTAAGACCATGTCTGGAACATGGCGTTGGCACCAAGATAAGAGGTC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACC-AGATAAGAGAAC
* *
33758005 TCCC--GTAAGACCATGTTTGGGACATGGCATTGGCACC-GATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAGATAAGAGAAC
* * *
33758053 TCCCATGCAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33758090 GTACTGAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 12 0.16
50 57 0.78
52 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAGATAAGAGAAC
Found at i:33759434 original size:26 final size:26
Alignment explanation
Indices: 33759398--33759450 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
33759388 TTAAGTCAAG
33759398 TAACGCCTCATGATCGACTCCGGCAA
1 TAACGCCTCATGATCGACTCCGGCAA
*
33759424 TAACGCCTCATGATCGACTCTGGCAA
1 TAACGCCTCATGATCGACTCCGGCAA
33759450 T
1 T
33759451 GGTATTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (26 bp):
TAACGCCTCATGATCGACTCCGGCAA
Found at i:33761385 original size:19 final size:19
Alignment explanation
Indices: 33761361--33761399 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
33761351 TGCAGGAATT
33761361 AACTGATAAAGGTTTTGCA
1 AACTGATAAAGGTTTTGCA
*
33761380 AACTGATTAAGGTTTTGCA
1 AACTGATAAAGGTTTTGCA
33761399 A
1 A
33761400 GGCCTAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (19 bp):
AACTGATAAAGGTTTTGCA
Found at i:33766571 original size:28 final size:27
Alignment explanation
Indices: 33766510--33766571 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 27
33766500 TTTGAGTTTA
*
33766510 AGGTTTAAGAGTTTGGAGGTTGGGTTT
1 AGGTTTAAGAGTTTGGAGGTTGGGTTC
33766537 AGTGTTTAATGA-TTTGG-GGTTATGGGTTC
1 AG-GTTTAA-GAGTTTGGAGG-T-TGGGTTC
33766566 AGGTTT
1 AGGTTT
33766572 GGGGTTGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
27 4 0.13
28 16 0.53
29 10 0.33
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.44
Consensus pattern (27 bp):
AGGTTTAAGAGTTTGGAGGTTGGGTTC
Found at i:33772586 original size:5 final size:6
Alignment explanation
Indices: 33772570--33772594 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
33772560 GTAGAAATGC
33772570 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
33772595 GGGGGGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:33772697 original size:20 final size:19
Alignment explanation
Indices: 33772649--33772697 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
33772639 AAAATAAAAT
*
33772649 AAAATAAAAATAGATTCAA
1 AAAATAAAAATAAATTCAA
* *
33772668 AAATACAAAAATAAATTTAA
1 AAA-ATAAAAATAAATTCAA
33772688 GAAAATAAAA
1 -AAAATAAAA
33772698 CAAATGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (19 bp):
AAAATAAAAATAAATTCAA
Found at i:33779344 original size:3 final size:3
Alignment explanation
Indices: 33779336--33779366 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33779326 AAAATTACAA
33779336 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
33779367 CTAAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:33784093 original size:71 final size:72
Alignment explanation
Indices: 33783987--33784124 Score: 188
Period size: 71 Copynumber: 1.9 Consensus size: 72
33783977 CCAAATGAAT
* * * *
33783987 ATTAAAACTAAATAAAATCTATTTGGGGATTTATTCCTGCCGTTTAACAAATTTTATTCGATTTT
1 ATTAAAACTAAATAAAATCCATTTGGGGATTTATTCCCGCCGTTCAACAAATTTTATTCCATTTT
33784052 TTTCCAA
66 TTTCCAA
* * * * *
33784059 ATTAAAAGTAAAT-AAATCCGTTTTGGGATTTATTCCCGCTGTTCAACGAATTTTATTCCATTTT
1 ATTAAAACTAAATAAAATCCATTTGGGGATTTATTCCCGCCGTTCAACAAATTTTATTCCATTTT
33784123 TT
66 TT
33784125 ATTATTTCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
71 45 0.79
72 12 0.21
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (72 bp):
ATTAAAACTAAATAAAATCCATTTGGGGATTTATTCCCGCCGTTCAACAAATTTTATTCCATTTT
TTTCCAA
Found at i:33784264 original size:89 final size:89
Alignment explanation
Indices: 33784059--33784639 Score: 472
Period size: 89 Copynumber: 6.7 Consensus size: 89
33784049 TTTTTTCCAA
* * * * * *
33784059 ATTAAAAGT-AAAT-AAATCCGTTTTGGGATTTATTCCCGCTGTTCAAC-GAATTTTATTCC-AT
1 ATTAAAATTAAAATAAAATCTGTTTCGAGATTTATTCCTGCCGTTCAACAG-ATTTTATTCCAAT
* *
33784120 TTT--TTATTATTT-C-TAAACGAGAA
65 TTTGATT-TTATTTCCAAAAACGAG-T
* * * * * * *
33784143 ATT-AAAGTCAAATAAAATTTGTTTCAAAATTTATTCCTGTCGTTCAATAGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGAGATTTATTCCTGCCGTTCAACAGATTTTATTCCAATT
33784207 TTGATTTTATTTCCAAAAACGAGT
66 TTGATTTTATTTCCAAAAACGAGT
* * * *
33784231 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGTCGTTCAACGGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGAGATTTATTCCTGCCGTTCAACAGATTTTATTCCAATT
* *
33784296 TTCATTTTATTTTCAAAAACGAGT
66 TTGATTTTATTTCCAAAAACGAGT
*
33784320 ATTAAAATTAAAATAAAATCTGTTTCG-GAATTTATTCAC-GCTGTTCAAC-GAATTTTATTCCA
1 ATTAAAATTAAAATAAAATCTGTTTCGAG-ATTTATTC-CTGCCGTTCAACAG-ATTTTATTCCA
* *
33784382 ATTTTGGTTTTATTTCCAAAAATGAGT
63 ATTTTGATTTTATTTCCAAAAACGAGT
* * * *
33784409 ATTAAAATAAAAATAAAATCTGTTTCGAGATTTATT-CTCACCGTTCAACGGA-TTTATTAC-AT
1 ATTAAAATTAAAATAAAATCTGTTTCGAGATTTATTCCT-GCCGTTCAACAGATTTTATTCCAAT
* * * *
33784471 TTTGATTTTGTTGCCAAAAATGAGAA
65 TTTGATTTTATTTCCAAAAACGAG-T
* * * * * **
33784497 ATTAAAATT-AAATAAAATTTGTTCCAAGATTTATTCATGCCGTTTAACAAGATTTTATT-TGAT
1 ATTAAAATTAAAATAAAATCTGTTTCGAGATTTATTCCTGCCGTTCAAC-AGATTTTATTCCAAT
* * *
33784560 TTT-ATTTTGTTTCTAAATTA-GA--
65 TTTGATTTTATTTCCAAA-AACGAGT
* * * *
33784582 ATT-AAATT-AAATAAAATCTGTTTCAAGATATATT-CTCGTCGTTTAACAAGATTTTATT
1 ATTAAAATTAAAATAAAATCTGTTTCGAGATTTATTCCT-GCCGTTCAAC-AGATTTTATT
33784640 TTGTTTCCAA
Statistics
Matches: 420, Mismatches: 54, Indels: 46
0.81 0.10 0.09
Matches are distributed among these distances:
83 6 0.01
84 55 0.13
85 37 0.09
86 6 0.01
87 61 0.15
88 40 0.10
89 212 0.50
90 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (89 bp):
ATTAAAATTAAAATAAAATCTGTTTCGAGATTTATTCCTGCCGTTCAACAGATTTTATTCCAATT
TTGATTTTATTTCCAAAAACGAGT
Found at i:33784354 original size:178 final size:175
Alignment explanation
Indices: 33784059--33784533 Score: 556
Period size: 178 Copynumber: 2.7 Consensus size: 175
33784049 TTTTTTCCAA
* * * * *
33784059 ATTAAAAGT-AAAT-AAATCCGTTTTGGGATTTATTCCCGCTGTTCAACGAATTTTATTCCATTT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGC-GTTCAACGGATTTTATTCCATTT
* * *
33784122 T-TTATTA-TTTC-TAAACGAGAAATTAAAGTCAAATAAAATTTGTTTCAAAATTTATTC-CTG-
65 TATT-TTATTTTCAAAAACGAGAAATTAAAATTAAATAAAATTTGTTTCAAAATTTATTCAC-GC
33784182 TCGTTCAATAG-ATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
128 T-GTTCAA-AGAATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
33784231 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGTCGTTCAACGGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAG-CGTTCAACGGATTTTATTCC-ATT
* * **
33784296 TTCATTTTATTTTCAAAAACGAG-TATTAAAATTAAAATAAAATCTGTTTCGGAATTTATTCACG
64 TT-ATTTTATTTTCAAAAACGAGAAATTAAAATT-AAATAAAATTTGTTTCAAAATTTATTCACG
* * *
33784360 CTGTTCAACGAATTTTATTCCAATTTTGGTTTTATTTCCAAAAATGAGT
127 CTGTTCAAAGAATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
* * * *
33784409 ATTAAAATAAAAATAAAATCTGTTTCGAGATTTATTCTCACCGTTCAACGGA-TTTATTACATTT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTC-CAGCGTTCAACGGATTTTATTCCATTT
* ** * * *
33784473 TGATTTTGTTGCCAAAAATGAGAAATTAAAATTAAATAAAATTTGTTCCAAGATTTATTCA
65 T-ATTTTATTTTCAAAAACGAGAAATTAAAATTAAATAAAATTTGTTTCAAAATTTATTCA
33784534 TGCCGTTTAA
Statistics
Matches: 259, Mismatches: 30, Indels: 24
0.83 0.10 0.08
Matches are distributed among these distances:
172 8 0.03
173 4 0.02
174 40 0.15
175 6 0.02
176 47 0.18
177 30 0.12
178 120 0.46
179 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (175 bp):
ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCGTTCAACGGATTTTATTCCATTTT
ATTTTATTTTCAAAAACGAGAAATTAAAATTAAATAAAATTTGTTTCAAAATTTATTCACGCTGT
TCAAAGAATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
Found at i:33784609 original size:84 final size:83
Alignment explanation
Indices: 33784419--33784816 Score: 385
Period size: 84 Copynumber: 4.8 Consensus size: 83
33784409 ATTAAAATAA
* * * * **
33784419 AAATAAAATCTGTTTCGAGATTTATTCTCACCGTTCAAC-GGA-TTTATTACATTTTGATTTTGT
1 AAATAAAATCTGTTTCAAGATTTATTCT-GCCGTTTAACAAGATTTTATTTGATTTT-ATTTTGT
* *
33784482 TGCCAAAAATGAGAAATTAAAATT
64 TTCC--AAATTAG-AATT-AAATT
* *
33784506 AAATAAAATTTGTTCCAAGATTTATTCATGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTT
1 AAATAAAATCTGTTTCAAGATTTATTC-TGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTT
*
33784571 TCTAAATTAGAATTAAATT
65 TCCAAATTAGAATTAAATT
* *
33784590 AAATAAAATCTGTTTCAAGATATATTCTCGTCGTTTAAC---A----A---GATTTTATTTTGTT
1 AAATAAAATCTGTTTCAAGATTTATTCT-GCCGTTTAACAAGATTTTATTTGATTTTATTTTGTT
33784645 TCCAAATTAGAATTAAATT
65 TCCAAATTAGAATTAAATT
** * * * *
33784664 AAATAAAATCTGTTTTGAGATATATCCCTGCCGTTTAA-AAGGATTTTATTTAATTTAATTTTGT
1 AAATAAAATCTGTTTCAAGATTTAT-TCTGCCGTTTAACAA-GATTTTATTTGATTTTATTTTGT
33784728 TTCCAAATTAGAATTAAATT
64 TTCCAAATTAGAATTAAATT
* * * *
33784748 AAATAAAATCTGTTTCAAGATTT-TCCCT-CCGTTTAACAAGATTTTATTCGATATTGTTTTGTT
1 AAATAAAATCTGTTTCAAGATTTAT-TCTGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTT
33784811 TCCAAA
65 TCCAAA
33784817 CAAAAACGTA
Statistics
Matches: 264, Mismatches: 30, Indels: 39
0.79 0.09 0.12
Matches are distributed among these distances:
74 63 0.24
75 2 0.01
77 2 0.01
81 2 0.01
82 33 0.12
83 8 0.03
84 89 0.34
85 4 0.02
86 6 0.02
87 32 0.12
88 12 0.05
89 11 0.04
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (83 bp):
AAATAAAATCTGTTTCAAGATTTATTCTGCCGTTTAACAAGATTTTATTTGATTTTATTTTGTTT
CCAAATTAGAATTAAATT
Found at i:33784639 original size:74 final size:73
Alignment explanation
Indices: 33784557--33784795 Score: 277
Period size: 74 Copynumber: 3.1 Consensus size: 73
33784547 GATTTTATTT
*
33784557 GATTTTATTTTGTTTCTAAATTAGAATTAAATTAAATAAAATCTGTTTCAAGATATATTCTCGTC
1 GATTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTGTTTCAAGATATATTC-CGTC
33784622 GTTTAACAA
65 GTTTAACAA
** * *
33784631 GATTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTGTTTTGAGATATATCCCTGCC
1 GATTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTGTTTCAAGATATATTCC-GTC
33784696 GTTTAA-AA
65 GTTTAACAA
33784704 GGATTTTATTTAATTTAATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTGTTTCAAGAT
1 -G-----A--T--TTT-ATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTGTTTCAAGAT
*
33784769 -T-TTCCCTCCGTTTAACAA
55 ATATTCCGT-CGTTTAACAA
33784787 GATTTTATT
1 GATTTTATT
33784796 CGATATTGTT
Statistics
Matches: 141, Mismatches: 10, Indels: 30
0.78 0.06 0.17
Matches are distributed among these distances:
72 3 0.02
73 6 0.04
74 65 0.46
75 1 0.01
77 1 0.01
79 1 0.01
81 1 0.01
82 11 0.08
83 6 0.04
84 46 0.33
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (73 bp):
GATTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTGTTTCAAGATATATTCCGTCG
TTTAACAA
Found at i:33784834 original size:82 final size:81
Alignment explanation
Indices: 33784635--33784895 Score: 233
Period size: 82 Copynumber: 3.1 Consensus size: 81
33784625 TAACAAGATT
** * * * *
33784635 TTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTGTTTTGAGATATATCCCTGCCGTTT
1 TTATTTTGTTTCCAAACAAAAAGTAAATCAAATAAAATCTGTTTTGAGAT-TTTCCCT-CCGTTT
*
33784700 AAAAGGATTTTATTTAAT-
64 AAAA-GATTTTATTTGATA
** * * * **
33784718 TTAATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTGTTTCAAGATTTTCCCTCCGTTTA
1 TT-ATTTTGTTTCCAAACAAAAAGTAAATCAAATAAAATCTGTTTTGAGATTTTCCCTCCGTTTA
*
33784783 ACAAGATTTTATTCGATA
65 A-AAGATTTTATTTGATA
* *
33784801 TTGTTTTGTTTCCAAACAAAAACGT-AATCAAAT-AATTCTGTTTTGAGATTTATTCCCGT-CGT
1 TTATTTTGTTTCCAAACAAAAA-GTAAATCAAATAAAATCTGTTTTGAGA-TT-TTCCC-TCCGT
*
33784863 TTAATAGATTTTATTTTGATA
62 TTAAAAGATTTTA-TTTGATA
*
33784884 TAATTTTGTTTC
1 TTATTTTGTTTC
33784896 AAGATTTAAT
Statistics
Matches: 152, Mismatches: 18, Indels: 16
0.82 0.10 0.09
Matches are distributed among these distances:
81 12 0.08
82 52 0.34
83 41 0.27
84 47 0.31
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (81 bp):
TTATTTTGTTTCCAAACAAAAAGTAAATCAAATAAAATCTGTTTTGAGATTTTCCCTCCGTTTAA
AAGATTTTATTTGATA
Found at i:33787668 original size:17 final size:19
Alignment explanation
Indices: 33787643--33787685 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
33787633 TGTATTTTGG
*
33787643 AATTAAAAAATAT-ATT-A
1 AATTTAAAAATATGATTGA
33787660 AATTTAAAAATATGATTGA
1 AATTTAAAAATATGATTGA
33787679 AATTTAA
1 AATTTAA
33787686 TTTAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.52
18 3 0.13
19 8 0.35
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AATTTAAAAATATGATTGA
Found at i:33787955 original size:31 final size:30
Alignment explanation
Indices: 33787920--33787979 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
33787910 GGAGGTGGGA
*
33787920 TGGGAAGGAAATAAAAGTTTTGGGGGAAAAG
1 TGGG-AGGAAATAAAAATTTTGGGGGAAAAG
* *
33787951 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGGAAATAAAAATTTTGGGGGAAAA
33787980 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (30 bp):
TGGGAGGAAATAAAAATTTTGGGGGAAAAG
Found at i:33788225 original size:18 final size:18
Alignment explanation
Indices: 33788202--33788240 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
33788192 TATTCGAATT
*
33788202 ATTATTTGAATTATTCGA
1 ATTATTTGAATTATTCAA
*
33788220 ATTATTTGAGTTATTCAA
1 ATTATTTGAATTATTCAA
33788238 ATT
1 ATT
33788241 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (18 bp):
ATTATTTGAATTATTCAA
Found at i:33789326 original size:20 final size:20
Alignment explanation
Indices: 33789303--33789342 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33789293 TATTTGGTTC
* *
33789303 TAATCAATTTGATTTGATTT
1 TAATCAAATTGATTCGATTT
33789323 TAATCAAATTGATTCGATTT
1 TAATCAAATTGATTCGATTT
33789343 CCCCTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
TAATCAAATTGATTCGATTT
Found at i:33789364 original size:21 final size:23
Alignment explanation
Indices: 33789340--33789383 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33789330 ATTGATTCGA
33789340 TTTCCCCTT-TA-ATGCATATTT
1 TTTCCCCTTATACATGCATATTT
* *
33789361 TTTCTCCTTATACATGGATATTT
1 TTTCCCCTTATACATGCATATTT
33789384 CCAAAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.52
Consensus pattern (23 bp):
TTTCCCCTTATACATGCATATTT
Found at i:33794337 original size:40 final size:40
Alignment explanation
Indices: 33794290--33794463 Score: 197
Period size: 40 Copynumber: 4.3 Consensus size: 40
33794280 GAATGAATTT
* * *
33794290 ACATATGTGCCCCTATTTGTACTTCGGTACCCTTGAATGC
1 ACATACGTGCCCCTATTTGTACTTTGGTACCCCTGAATGC
* * * *
33794330 TCATATGTGCCCTTGTTTGTACTTTGGTACCCCTGAATGC
1 ACATACGTGCCCCTATTTGTACTTTGGTACCCCTGAATGC
* * *
33794370 ACATACATGCCCATGTTTGTACTTTGGTACCCCTGAATGC
1 ACATACGTGCCCCTATTTGTACTTTGGTACCCCTGAATGC
* * *
33794410 ACATACGTCCCCCTGA-ATGTACTTTGATACCCCTGAATGC
1 ACATACGTGCCCCT-ATTTGTACTTTGGTACCCCTGAATGC
* *
33794450 ACTTACATGCCCCT
1 ACATACGTGCCCCT
33794464 GTTTATCCTC
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (40 bp):
ACATACGTGCCCCTATTTGTACTTTGGTACCCCTGAATGC
Found at i:33794431 original size:80 final size:80
Alignment explanation
Indices: 33794305--33794467 Score: 227
Period size: 80 Copynumber: 2.0 Consensus size: 80
33794295 TGTGCCCCTA
* * * * * ** *
33794305 TTTGTACTTCGGTACCCTTGAATGCTCATATGTGCCCTTGTTTGTACTTTGGTACCCCTGAATGC
1 TTTGTACTTCGGTACCCCTGAATGCACATACGTCCCCCTGAATGTACTTTGATACCCCTGAATGC
33794370 ACATACATGCCCATG
66 ACATACATGCCCATG
*
33794385 TTTGTACTTTGGTACCCCTGAATGCACATACGTCCCCCTGAATGTACTTTGATACCCCTGAATGC
1 TTTGTACTTCGGTACCCCTGAATGCACATACGTCCCCCTGAATGTACTTTGATACCCCTGAATGC
* *
33794450 ACTTACATGCCCCTG
66 ACATACATGCCCATG
33794465 TTT
1 TTT
33794468 ATCCTCTAGT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (80 bp):
TTTGTACTTCGGTACCCCTGAATGCACATACGTCCCCCTGAATGTACTTTGATACCCCTGAATGC
ACATACATGCCCATG
Found at i:33794442 original size:20 final size:19
Alignment explanation
Indices: 33794390--33794453 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
33794380 CCATGTTTGT
33794390 ACTTTGGTACCCCTGAATGC
1 ACTTT-GTACCCCTGAATGC
** * *
33794410 ACATACGTCCCCCTGAATGT
1 AC-TTTGTACCCCTGAATGC
33794430 ACTTTGATACCCCTGAATGC
1 ACTTTG-TACCCCTGAATGC
33794450 ACTT
1 ACTT
33794454 ACATGCCCCT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.06
20 31 0.91
21 1 0.03
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (19 bp):
ACTTTGTACCCCTGAATGC
Found at i:33794462 original size:20 final size:20
Alignment explanation
Indices: 33794397--33794464 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
33794387 TGTACTTTGG
* *
33794397 TACCCCTGAATGCACATACG
1 TACCCCTGAATGCACTTACA
* * **
33794417 TCCCCCTGAATGTACTTTGA
1 TACCCCTGAATGCACTTACA
33794437 TACCCCTGAATGCACTTACA
1 TACCCCTGAATGCACTTACA
*
33794457 TGCCCCTG
1 TACCCCTG
33794465 TTTATCCTCT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (20 bp):
TACCCCTGAATGCACTTACA
Found at i:33797948 original size:25 final size:25
Alignment explanation
Indices: 33797877--33797949 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
33797867 TCCTGTACAT
* * *
33797877 GTATGCTTATACGAGCTGTGAATCA
1 GTATGCTCACACGAGCTGTAAATCA
* *
33797902 GTATGCTCACTCGAGCTATAAATCA
1 GTATGCTCACACGAGCTGTAAATCA
* *
33797927 GTATGCTCTCACGAACTGTAAAT
1 GTATGCTCACACGAGCTGTAAAT
33797950 TGGAATGCTC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCA
Found at i:33798884 original size:156 final size:157
Alignment explanation
Indices: 33798660--33798972 Score: 619
Period size: 156 Copynumber: 2.0 Consensus size: 157
33798650 AATTTCAAAA
33798660 CCCTAATAGTTTAAAAGTTTCACAAATTAGTCCCTAAGCTAGCTAGATTAAGCTACAACGATTCT
1 CCCTAATAGTTTAAAAGTTTCACAAATTAGTCCCTAAGCTAGCTAGATTAAGCTACAACGATTCT
33798725 GAAAATATAGAAATCATTAAAAACGGGCTTCAAAACCTACCTCTAGCCGAATGCTCCCCCCTTTT
66 GAAAATATAGAAATCATTAAAAACGGGCTTCAAAACCTACCTCTAGCCGAATGCTCCCCCCTTTT
33798790 TTCTAAGAATTTTTAGAGCTTTTAGGT
131 TTCTAAGAATTTTTAGAGCTTTTAGGT
33798817 CCCTAATAG-TTAAAAGTTTCACAAATTAGTCCCTAAGCTAGCTAGATTAAGCTACAACGATTCT
1 CCCTAATAGTTTAAAAGTTTCACAAATTAGTCCCTAAGCTAGCTAGATTAAGCTACAACGATTCT
33798881 GAAAATATAGAAATCATTAAAAACGGGCTTCAAAACCTACCTCTAGCCGAATGCTCCCCCCTTTT
66 GAAAATATAGAAATCATTAAAAACGGGCTTCAAAACCTACCTCTAGCCGAATGCTCCCCCCTTTT
33798946 TTCTAAGAATTTTTAGAGCTTTTAGGT
131 TTCTAAGAATTTTTAGAGCTTTTAGGT
33798973 TAAAAAGATG
Statistics
Matches: 156, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
156 147 0.94
157 9 0.06
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (157 bp):
CCCTAATAGTTTAAAAGTTTCACAAATTAGTCCCTAAGCTAGCTAGATTAAGCTACAACGATTCT
GAAAATATAGAAATCATTAAAAACGGGCTTCAAAACCTACCTCTAGCCGAATGCTCCCCCCTTTT
TTCTAAGAATTTTTAGAGCTTTTAGGT
Found at i:33799020 original size:20 final size:20
Alignment explanation
Indices: 33798995--33799046 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
33798985 AAAGATGATA
33798995 TTAATTTACTTTTAATTTAC
1 TTAATTTACTTTTAATTTAC
* *
33799015 TTAATTTGTCATTT-ATTTAC
1 TTAATTT-ACTTTTAATTTAC
33799035 -TAA-TTACTTTTA
1 TTAATTTACTTTTA
33799047 TAACCTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.15
18 2 0.08
19 3 0.12
20 13 0.50
21 4 0.15
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (20 bp):
TTAATTTACTTTTAATTTAC
Found at i:33801051 original size:16 final size:16
Alignment explanation
Indices: 33801030--33801062 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33801020 TTTTGTTATC
*
33801030 GTATTAACTTAATTTA
1 GTATTAACTGAATTTA
33801046 GTATTAACTGAATTTA
1 GTATTAACTGAATTTA
33801062 G
1 G
33801063 CTAACTCGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (16 bp):
GTATTAACTGAATTTA
Found at i:33805097 original size:40 final size:40
Alignment explanation
Indices: 33805046--33805232 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
33805036 TATATATGTC
* * *
33805046 CCCCCGTTTGTACTTCGGTACCCTTGAATGCACACACATG
1 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATG
*
33805086 CCCCTGTTTGTACTTCAGTACCCCTGAATGCACATACATG
1 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATG
* * **
33805126 CCCCTGTTTGTACTTTGGTACCCCTGAATGCATATACACA
1 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATG
* * * * *
33805166 CCCCTGATTGTACTTCAGT--CCCTGACTGCACTTATATG
1 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATG
* * * * *
33805204 CCCTTGTTTATACCTCGGTAACTCTGAAT
1 CCCCTGTTTGTACTTCGGTACCCCTGAAT
33805233 CATATAGTAT
Statistics
Matches: 120, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
38 27 0.22
40 93 0.77
ACGTcount: A:0.21, C:0.32, G:0.16, T:0.32
Consensus pattern (40 bp):
CCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACATG
Found at i:33805111 original size:20 final size:20
Alignment explanation
Indices: 33805086--33805151 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
33805076 CACACACATG
33805086 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCAGTA
** * * *
33805106 CCCCTGAATGCACATACA-TG
1 CCCCTGTTTGTAC-TTCAGTA
**
33805126 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCAGTA
33805146 CCCCTG
1 CCCCTG
33805152 AATGCATATA
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.88
21 3 0.09
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCAGTA
Found at i:33805231 original size:78 final size:78
Alignment explanation
Indices: 33805086--33805238 Score: 191
Period size: 78 Copynumber: 1.9 Consensus size: 78
33805076 CACACACATG
* * * * *
33805086 CCCCTGTTTGTACTTCAGTACCCCTGAATGCACATACATGCCCCTGTTTGTACTTTGGTACCCCT
1 CCCCTGATTGTACTTCAGTA-CCCTGAATGCACATACATGCCCCTGTTTATACCTCGGTAACCCT
33805151 GAATGCATATACACA
65 GAAT-CATATACACA
* * * * *
33805166 CCCCTGATTGTACTTCAGT-CCCTGACTGCACTTATATGCCCTTGTTTATACCTCGGTAACTCTG
1 CCCCTGATTGTACTTCAGTACCCTGAATGCACATACATGCCCCTGTTTATACCTCGGTAACCCTG
33805230 AATCATATA
66 AATCATATA
33805239 GTATAGGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 6 0.10
78 39 0.62
80 18 0.29
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.33
Consensus pattern (78 bp):
CCCCTGATTGTACTTCAGTACCCTGAATGCACATACATGCCCCTGTTTATACCTCGGTAACCCTG
AATCATATACACA
Found at i:33823863 original size:16 final size:16
Alignment explanation
Indices: 33823844--33823875 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33823834 ACTTTGGGAG
33823844 TTAGTTTCTTTGTATA
1 TTAGTTTCTTTGTATA
33823860 TTAGTTTCTTTGTATA
1 TTAGTTTCTTTGTATA
33823876 AGATTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (16 bp):
TTAGTTTCTTTGTATA
Found at i:33823884 original size:15 final size:15
Alignment explanation
Indices: 33823845--33823885 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
33823835 CTTTGGGAGT
33823845 TAGTTTCTTTGTATA
1 TAGTTTCTTTGTATA
33823860 TTAGTTTCTTTGTATA
1 -TAGTTTCTTTGTATA
33823876 -AGATTTCTTT
1 TAG-TTTCTTT
33823886 CTTGTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.08
15 7 0.29
16 15 0.62
ACGTcount: A:0.20, C:0.07, G:0.12, T:0.61
Consensus pattern (15 bp):
TAGTTTCTTTGTATA
Found at i:33827248 original size:23 final size:23
Alignment explanation
Indices: 33827222--33827276 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
33827212 TACTAAATAA
* *
33827222 ATTAATAACAAT-AAAATAATAT
1 ATTAATAAAAATCAAAATAAAAT
* *
33827244 CATTAAAAAAAATCAAATTAAAAT
1 -ATTAATAAAAATCAAAATAAAAT
33827268 ATTAATAAA
1 ATTAATAAA
33827277 CTAATATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (23 bp):
ATTAATAAAAATCAAAATAAAAT
Found at i:33831091 original size:27 final size:27
Alignment explanation
Indices: 33831060--33831116 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
33831050 TATGGGTTCC
33831060 TCAGTATACGTCAAATTAGGCTGAAAT
1 TCAGTATACGTCAAATTAGGCTGAAAT
33831087 TCAGTATACGTCAAATTAGGCTGAAAT
1 TCAGTATACGTCAAATTAGGCTGAAAT
33831114 TCA
1 TCA
33831117 ATCTCACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (27 bp):
TCAGTATACGTCAAATTAGGCTGAAAT
Found at i:33845007 original size:14 final size:14
Alignment explanation
Indices: 33844988--33845017 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33844978 GCCAGTATTC
33844988 TATGTTGGCATAAT
1 TATGTTGGCATAAT
*
33845002 TATGTTGGCTTAAT
1 TATGTTGGCATAAT
33845016 TA
1 TA
33845018 GTCTTCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (14 bp):
TATGTTGGCATAAT
Found at i:33848823 original size:21 final size:21
Alignment explanation
Indices: 33848799--33848863 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
33848789 GATAGTTCTA
33848799 TTTTACCAGGCAATTGGCTTT
1 TTTTACCAGGCAATTGGCTTT
** * *
33848820 TTTTATCC-GTTAGTT--C-TA
1 TTTTA-CCAGGCAATTGGCTTT
33848838 TTTTACCAGGCAATTGGCTTT
1 TTTTACCAGGCAATTGGCTTT
33848859 TTTTA
1 TTTTA
33848864 TCCTGGTTCT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
17 2 0.06
18 10 0.32
19 1 0.03
20 1 0.03
21 15 0.48
22 2 0.06
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.49
Consensus pattern (21 bp):
TTTTACCAGGCAATTGGCTTT
Found at i:33848845 original size:39 final size:39
Alignment explanation
Indices: 33848791--33848866 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
33848781 GCCAATAAGA
33848791 TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCCGT
1 TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCCGT
33848830 TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCC
1 TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCC
33848867 TGGTTCTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (39 bp):
TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCCGT
Found at i:33848873 original size:37 final size:38
Alignment explanation
Indices: 33848791--33848881 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 38
33848781 GCCAATAAGA
33848791 TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCCG
1 TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCCG
33848829 TTAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCC-
1 -TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCCG
*
33848867 TGGTTCTATTATTAC
1 TAGTTCTATT-TTAC
33848882 TGACTTAAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
37 9 0.18
38 4 0.08
39 37 0.74
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (38 bp):
TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCCG
Found at i:33852738 original size:21 final size:20
Alignment explanation
Indices: 33852701--33852754 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
33852691 CGTAGCCTTG
*
33852701 TGTTGAGCCACAACAACCCTA
1 TGTTGAGCCATAACAA-CCTA
* *
33852722 TGTTGAGCCATATCAACCTG
1 TGTTGAGCCATAACAACCTA
*
33852742 TGTTTAGCCATAA
1 TGTTGAGCCATAA
33852755 AGCCTGCATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
TGTTGAGCCATAACAACCTA
Found at i:33852750 original size:20 final size:21
Alignment explanation
Indices: 33852699--33852754 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
33852689 CACGTAGCCT
*
33852699 TGTGTTGAGCCACAACAACCC
1 TGTGTTGAGCCATAACAACCC
* *
33852720 TATGTTGAGCCATATCAA-CC
1 TGTGTTGAGCCATAACAACCC
*
33852740 TGTGTTTAGCCATAA
1 TGTGTTGAGCCATAA
33852755 AGCCTGCATG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (21 bp):
TGTGTTGAGCCATAACAACCC
Found at i:33856681 original size:37 final size:37
Alignment explanation
Indices: 33856631--33856702 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
33856621 TTTGGCGTCT
*
33856631 GAGCATTTGGCGTGTTATCGGTTGGATTAGCTCTTTG
1 GAGCACTTGGCGTGTTATCGGTTGGATTAGCTCTTTG
*
33856668 GAGCACTTGGCGTGTTTTCGGTTGGATTAGCTCTT
1 GAGCACTTGGCGTGTTATCGGTTGGATTAGCTCTT
33856703 ACGAGCGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.12, C:0.15, G:0.32, T:0.40
Consensus pattern (37 bp):
GAGCACTTGGCGTGTTATCGGTTGGATTAGCTCTTTG
Found at i:33856721 original size:37 final size:37
Alignment explanation
Indices: 33856643--33856721 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
33856633 GCATTTGGCG
* ** * *
33856643 TGTTATCGGTTGGATTAGCTCTTTGGAGCACTTGGCG
1 TGTTTTCGGTTGGATTAGCTCTTACGAGCACTTGACA
**
33856680 TGTTTTCGGTTGGATTAGCTCTTACGAGCGTTTGACA
1 TGTTTTCGGTTGGATTAGCTCTTACGAGCACTTGACA
33856717 TGTTT
1 TGTTT
33856722 CAGGTGGATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.14, C:0.15, G:0.29, T:0.42
Consensus pattern (37 bp):
TGTTTTCGGTTGGATTAGCTCTTACGAGCACTTGACA
Found at i:33857867 original size:20 final size:19
Alignment explanation
Indices: 33857842--33857895 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
33857832 GTGTGTCCCT
33857842 TATTTTTTTGAAAATTTTCA
1 TATTTTTTTG-AAATTTTCA
* *
33857862 TATTTTCTTGAAATTTTCT
1 TATTTTTTTGAAATTTTCA
33857881 TATTTGTTTT-AAATT
1 TATTT-TTTTGAAATT
33857896 AATCTCGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (19 bp):
TATTTTTTTGAAATTTTCA
Found at i:33858282 original size:27 final size:27
Alignment explanation
Indices: 33858246--33858342 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
33858236 TTCAGATTGC
*
33858246 CACAAGGGCTTCCTTTACATGGATA-A
1 CACAAAGGCTTCCTTTACATGGATAGA
* *
33858272 CATCAAAGGCTTCCTTTACATGTATAGC
1 CA-CAAAGGCTTCCTTTACATGGATAGA
* *
33858300 CACAAAGGC-TCCTATTACA-GAGATTGC
1 CACAAAGGCTTCCT-TTACATG-GATAGA
*
33858327 CACAAAGGCTTTCTTT
1 CACAAAGGCTTCCTTT
33858343 TCAAATATGC
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
26 7 0.12
27 48 0.80
28 5 0.08
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (27 bp):
CACAAAGGCTTCCTTTACATGGATAGA
Found at i:33858438 original size:28 final size:27
Alignment explanation
Indices: 33858298--33858496 Score: 126
Period size: 26 Copynumber: 7.4 Consensus size: 27
33858288 TACATGTATA
* * *
33858298 GCCACAAAGG-CTCCTATTACAGAGATT
1 GCCACAAAGGATTCC-ATTTCAGATATT
* * * *
33858325 GCCACAAAGGCTTTCTTTTCAAATA-T
1 GCCACAAAGGATTCCATTTCAGATATT
* *
33858351 GCCACAAAGGTTTTCATTTC--ATATGT
1 GCCACAAAGGATTCCATTTCAGATAT-T
* *
33858377 GCCACAAAGGCTTCCATTTTATG-TA-T
1 GCCACAAAGGATTCCATTTCA-GATATT
33858403 GCCACAAAGGATTCCATTTCAGATATT
1 GCCACAAAGGATTCCATTTCAGATATT
* **
33858430 CGCCACAAAGGCTTTCC-TTTCAGAGGTCT
1 -GCCACAAAGG-ATTCCATTTCAGATAT-T
**
33858459 GCCACAAAGGCATTCC-TTTCAGAGGTT
1 GCCACAAAGG-ATTCCATTTCAGATATT
33858486 CGCCACAAAGG
1 -GCCACAAAGG
33858497 CTTTCCTTTT
Statistics
Matches: 143, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.02
25 1 0.01
26 59 0.41
27 18 0.13
28 57 0.40
29 5 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (27 bp):
GCCACAAAGGATTCCATTTCAGATATT
Found at i:33858464 original size:56 final size:53
Alignment explanation
Indices: 33858275--33858505 Score: 213
Period size: 56 Copynumber: 4.3 Consensus size: 53
33858265 TGGATAACAT
* * *
33858275 CAAAGGC-TTCCTTTACATGTATAGCCACAAAGG-CTCCTATTACAGAGATTGCCA
1 CAAAGGCTTTCCTTT-CAAGTAT-GCCACAAAGGATTCC-ATTTCAGAGATTGCCA
* * * * *
33858329 CAAAGGCTTTCTTTTCAAATATGCCACAAAGGTTTTCATTTC--ATATGTGCCA
1 CAAAGGCTTTCCTTTCAAGTATGCCACAAAGGATTCCATTTCAGAGAT-TGCCA
* * *
33858381 CAAAGGC-TTCCATTTTATGTATGCCACAAAGGATTCCATTTCAGATATTCGCCA
1 CAAAGGCTTTCC-TTTCAAGTATGCCACAAAGGATTCCATTTCAGAGATT-GCCA
* *
33858435 CAAAGGCTTTCCTTTCAGAGGTCTGCCACAAAGGCATTCC-TTTCAGAGGTTCGCCA
1 CAAAGGCTTTCCTTTCA-A-GTATGCCACAAAGG-ATTCCATTTCAGAGATT-GCCA
33858491 CAAAGGCTTTCCTTT
1 CAAAGGCTTTCCTTT
33858506 TCTGGTGTTT
Statistics
Matches: 148, Mismatches: 18, Indels: 20
0.80 0.10 0.11
Matches are distributed among these distances:
51 6 0.04
52 37 0.25
53 15 0.10
54 33 0.22
55 10 0.07
56 42 0.28
57 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (53 bp):
CAAAGGCTTTCCTTTCAAGTATGCCACAAAGGATTCCATTTCAGAGATTGCCA
Found at i:33858497 original size:28 final size:28
Alignment explanation
Indices: 33858403--33858505 Score: 138
Period size: 28 Copynumber: 3.7 Consensus size: 28
33858393 TTTTATGTAT
**
33858403 GCCACAAAGG-ATTCCATTTCAGATATTC
1 GCCACAAAGGCATTCC-TTTCAGAGGTTC
*
33858431 GCCACAAAGGCTTTCCTTTCAGAGG-TC
1 GCCACAAAGGCATTCCTTTCAGAGGTTC
33858458 TGCCACAAAGGCATTCCTTTCAGAGGTTC
1 -GCCACAAAGGCATTCCTTTCAGAGGTTC
*
33858487 GCCACAAAGGCTTTCCTTT
1 GCCACAAAGGCATTCCTTT
33858506 TCTGGTGTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
27 2 0.03
28 59 0.88
29 6 0.09
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (28 bp):
GCCACAAAGGCATTCCTTTCAGAGGTTC
Found at i:33861013 original size:17 final size:17
Alignment explanation
Indices: 33860991--33861024 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33860981 TATCAGTTGC
*
33860991 TATTTCAATAGCATTTT
1 TATTTCAATAACATTTT
33861008 TATTTCAATAACATTTT
1 TATTTCAATAACATTTT
33861025 CCATTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTTCAATAACATTTT
Found at i:33861032 original size:18 final size:17
Alignment explanation
Indices: 33860992--33861033 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
33860982 ATCAGTTGCT
* *
33860992 ATTTCAATAGCATTTTT
1 ATTTCAATAACATTTTC
33861009 ATTTCAATAACATTTTCC
1 ATTTCAATAACATTTT-C
33861027 ATTTCAA
1 ATTTCAA
33861034 AATCAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:33862366 original size:35 final size:34
Alignment explanation
Indices: 33862326--33862539 Score: 115
Period size: 35 Copynumber: 5.9 Consensus size: 34
33862316 AAATGCGACG
*
33862326 TTAAAAGGTTGGGATAGACAGGTTCTAAGGCAACC
1 TTAAAAGGTTGGGATAGACATG-TCTAAGGCAACC
* * * *
33862361 TTAAAAGGGTTGAGATAGACTCATCTAAGTCTATGCCGACC
1 TTAAAA-GGTTGGGATAGA--CA--T--GTCTAAGGCAACC
* * * * * *
33862402 TTTAAAGAGTT-GGATCATGCCCATGTCAAATGCGACGT
1 TTAAAAG-GTTGGGAT-A-G-ACATGTCTAAGGCAAC-C
* *
33862440 TTAAAAGGTTGGGATAGATAGGTTCTAAGGCAACC
1 TTAAAAGGTTGGGATAGACATG-TCTAAGGCAACC
* * *
33862475 TTAAAAGGGTTAGAATAGACCTGTCTAAGGCAACC
1 TTAAAA-GGTTGGGATAGACATGTCTAAGGCAACC
* *
33862510 TTCAAAAGGTTAGGATAGACACGTCTAAGG
1 TT-AAAAGGTTGGGATAGACATGTCTAAGG
33862540 TAATTTTTTT
Statistics
Matches: 134, Mismatches: 29, Indels: 32
0.69 0.15 0.16
Matches are distributed among these distances:
35 48 0.36
36 35 0.26
37 12 0.09
38 12 0.09
39 1 0.01
40 4 0.03
41 20 0.15
42 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (34 bp):
TTAAAAGGTTGGGATAGACATGTCTAAGGCAACC
Found at i:33862503 original size:114 final size:113
Alignment explanation
Indices: 33862279--33862494 Score: 362
Period size: 114 Copynumber: 1.9 Consensus size: 113
33862269 AAAGCATACA
* *
33862279 TATGCCGACCTTTAAAGAGTTGGGTCATGCCTACATCAAATGCGACGTTAAAAGGTTGGGATAGA
1 TATGCCGACCTTTAAAGAGTTGGATCATGCCCACATCAAATGCGACGTTAAAAGGTTGGGATAGA
33862344 CAGGTTCTAAGGCAACCTTAAAAGGGTTGAGATAGACTCATCTAAGTC
66 CAGGTTCTAAGGCAACCTTAAAAGGGTTGAGATAGACTCATCTAAGTC
**
33862392 TATGCCGACCTTTAAAGAGTTGGATCATGCCCATGTCAAATGCGACGTTTAAAAGGTTGGGATAG
1 TATGCCGACCTTTAAAGAGTTGGATCATGCCCACATCAAATGCGACG-TTAAAAGGTTGGGATAG
*
33862457 ATAGGTTCTAAGGCAACCTTAAAAGGGTT-AGAATAGAC
65 ACAGGTTCTAAGGCAACCTTAAAAGGGTTGAG-ATAGAC
33862495 CTGTCTAAGG
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
113 45 0.47
114 51 0.53
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (113 bp):
TATGCCGACCTTTAAAGAGTTGGATCATGCCCACATCAAATGCGACGTTAAAAGGTTGGGATAGA
CAGGTTCTAAGGCAACCTTAAAAGGGTTGAGATAGACTCATCTAAGTC
Found at i:33863390 original size:39 final size:39
Alignment explanation
Indices: 33863341--33863418 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
33863331 ACCAAACTTG
* *
33863341 AATATTCTAACAACTTACGACTACTAAATCCAAAGATAA
1 AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
33863380 AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
1 AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
33863419 CTATTCTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.24
Consensus pattern (39 bp):
AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
Found at i:33865728 original size:14 final size:14
Alignment explanation
Indices: 33865711--33865746 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
33865701 TATAACATAT
33865711 ATATTAATGTTAAC
1 ATATTAATGTTAAC
33865725 ATATTAATGTTAAC
1 ATATTAATGTTAAC
*
33865739 ATAATAAT
1 ATATTAAT
33865747 ATATATTTTA
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:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (14 bp):
ATATTAATGTTAAC
Found at i:33869084 original size:12 final size:12
Alignment explanation
Indices: 33869067--33869091 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33869057 GTCCGTGTTG
33869067 AACTTAAATTTT
1 AACTTAAATTTT
33869079 AACTTAAATTTT
1 AACTTAAATTTT
33869091 A
1 A
33869092 GTTACAACAG
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
AACTTAAATTTT
Found at i:33871462 original size:20 final size:20
Alignment explanation
Indices: 33871437--33871477 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
33871427 ATGACCTACA
33871437 AAAAAAATGAAAAAACAACT
1 AAAAAAATGAAAAAACAACT
*
33871457 AAAAAAATGGAAAAACAACT
1 AAAAAAATGAAAAAACAACT
33871477 A
1 A
33871478 TGTAAGCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (20 bp):
AAAAAAATGAAAAAACAACT
Found at i:33873816 original size:18 final size:18
Alignment explanation
Indices: 33873776--33873816 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
33873766 TTAATCTTTG
33873776 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
33873793 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
33873812 -TTTAT
1 ATTTAT
33873817 CTGACTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:33883054 original size:23 final size:26
Alignment explanation
Indices: 33883028--33883076 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 26
33883018 TGTAAATAAG
33883028 AAAAGAATTTC-T-AGA-AATTTTCT
1 AAAAGAATTTCTTCAGAGAATTTTCT
*
33883051 AAAATAATTTCTTCAGAGAATTTTCT
1 AAAAGAATTTCTTCAGAGAATTTTCT
33883077 CTCTACAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
24 1 0.05
25 3 0.14
26 8 0.36
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (26 bp):
AAAAGAATTTCTTCAGAGAATTTTCT
Found at i:33883335 original size:59 final size:61
Alignment explanation
Indices: 33883203--33883363 Score: 177
Period size: 59 Copynumber: 2.7 Consensus size: 61
33883193 TTAATATAAT
** ** * *
33883203 ATTATTAGGTTAAATTTAATATTAAATCTTATTAAATTAATAGAATATTTATCTACAAGATA
1 ATTATTAAATTAAATTTAATATTAAATAATATTAAATTAATAAAATATCTATCTA-AAGATA
** *
33883265 AACATTAAATTAAATTTAATATTAAGGTAATATTAAATTAATAAAATA-CTAT-T-AAGATA
1 ATTATTAAATTAAATTTAATATTAA-ATAATATTAAATTAATAAAATATCTATCTAAAGATA
* *
33883324 ATTATTAAATTAAATTTAATATTAAAT-CTATTAAAATAAT
1 ATTATTAAATTAAATTTAATATTAAATAATATTAAATTAAT
33883364 GTTATTTTTG
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
57 11 0.13
58 1 0.01
59 29 0.35
61 1 0.01
62 24 0.29
63 18 0.21
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (61 bp):
ATTATTAAATTAAATTTAATATTAAATAATATTAAATTAATAAAATATCTATCTAAAGATA
Found at i:33886050 original size:31 final size:32
Alignment explanation
Indices: 33886013--33886087 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 32
33886003 GAAAGGAAAA
*
33886013 CCTTTGTGGCAAGTACTGAATG-AAAATGATG
1 CCTTTGTGGCAAGTACTGAATGAAAAAAGATG
** *
33886044 CCTTTGTGGTGAGTATTGAATGAAAAAAGATG
1 CCTTTGTGGCAAGTACTGAATGAAAAAAGATG
33886076 CCTTTGTGGCAA
1 CCTTTGTGGCAA
33886088 ACCACTGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 19 0.51
32 18 0.49
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (32 bp):
CCTTTGTGGCAAGTACTGAATGAAAAAAGATG
Found at i:33890644 original size:23 final size:23
Alignment explanation
Indices: 33890618--33890662 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
33890608 ATATTTTAAT
33890618 GACTCTAATGACTTAGTAAATAC
1 GACTCTAATGACTTAGTAAATAC
*
33890641 GACTCTAATGACTTCGTAAATA
1 GACTCTAATGACTTAGTAAATA
33890663 TTCTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (23 bp):
GACTCTAATGACTTAGTAAATAC
Found at i:33897589 original size:20 final size:19
Alignment explanation
Indices: 33897566--33897630 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33897556 AAGCTCAAAC
33897566 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33897586 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33897606 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33897626 GAGCT
1 GAGCT
33897631 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:33909915 original size:19 final size:19
Alignment explanation
Indices: 33909889--33909934 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
33909879 TTAATAATCT
* *
33909889 TGAATGCATATG-ATGACA
1 TGAATGCAGATGCATGAAA
33909907 TGTAATGCAGATGCATGAAA
1 TG-AATGCAGATGCATGAAA
33909927 TGAATGCA
1 TGAATGCA
33909935 AAAAGGAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (19 bp):
TGAATGCAGATGCATGAAA
Found at i:33910919 original size:36 final size:36
Alignment explanation
Indices: 33910872--33910943 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
33910862 TCCTTTTACG
33910872 TCACCACTCACCGTACTCTGGAGTTGTCATCGAACC
1 TCACCACTCACCGTACTCTGGAGTTGTCATCGAACC
33910908 TCACCACTCACCGTACTCTGGAGTTGTCATCGAACC
1 TCACCACTCACCGTACTCTGGAGTTGTCATCGAACC
33910944 CACAGCTAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (36 bp):
TCACCACTCACCGTACTCTGGAGTTGTCATCGAACC
Found at i:33913529 original size:27 final size:26
Alignment explanation
Indices: 33913499--33913549 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
33913489 ATGAAATTCT
*
33913499 TACAAA-CAATATGATCGATTAACAATA
1 TACAAAGCAA-ATGAT-GAATAACAATA
33913526 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
33913550 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.22
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:33913951 original size:21 final size:20
Alignment explanation
Indices: 33913904--33913951 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
33913894 AATCTTAAAC
* *
33913904 AAAATTAAAATAATAGTATAT
1 AAAA-TAAAATAATAGAAAAT
33913925 AAAATAAAATAAATAGAAAAT
1 AAAATAAAAT-AATAGAAAAT
*
33913946 ACAATA
1 AAAATA
33913952 GACTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (20 bp):
AAAATAAAATAATAGAAAAT
Found at i:33916446 original size:20 final size:20
Alignment explanation
Indices: 33916418--33916457 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33916408 TCTTAATTAG
*
33916418 AATCTCTAAAAATTAGCTAT
1 AATCCCTAAAAATTAGCTAT
**
33916438 AATCCCTAAAGGTTAGCTAT
1 AATCCCTAAAAATTAGCTAT
33916458 TCAGTGCTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (20 bp):
AATCCCTAAAAATTAGCTAT
Found at i:33927120 original size:12 final size:12
Alignment explanation
Indices: 33927105--33927175 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 12
33927095 TCACTCTCAT
33927105 TTTCTTTTTCAA
1 TTTCTTTTTCAA
33927117 TTTCTTGTTTTC--
1 TTTC-T-TTTTCAA
* * *
33927129 TTTCATGTTCAT
1 TTTCTTTTTCAA
33927141 TTTCTTTTTCAA
1 TTTCTTTTTCAA
***
33927153 TTTCTTTTTGTT
1 TTTCTTTTTCAA
33927165 TTTCTTTTTCA
1 TTTCTTTTTCA
33927176 CATGCTATTT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
10 4 0.09
12 35 0.78
13 1 0.02
14 5 0.11
ACGTcount: A:0.10, C:0.15, G:0.04, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:33929479 original size:17 final size:19
Alignment explanation
Indices: 33929446--33929491 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
33929436 TAAACCTGGA
33929446 ATTTTTTTTCAACACTTC-
1 ATTTTTTTTCAACACTTCG
33929464 ATTTTTTTT-ATA-ACTTCG
1 ATTTTTTTTCA-ACACTTCG
33929482 TATTTTTTTT
1 -ATTTTTTTT
33929492 TCTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 6 0.24
18 10 0.40
19 9 0.36
ACGTcount: A:0.20, C:0.13, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTTTTTCAACACTTCG
Found at i:33930826 original size:20 final size:20
Alignment explanation
Indices: 33930793--33930837 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
33930783 TAAATTCACA
33930793 TAATTAAAACAAGACAC-AAT
1 TAATTAAAACAAGAC-CTAAT
**
33930813 TAATTAAATTAAGACCTAAT
1 TAATTAAAACAAGACCTAAT
33930833 TAATT
1 TAATT
33930838 CGGTTAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (20 bp):
TAATTAAAACAAGACCTAAT
Found at i:33931997 original size:248 final size:248
Alignment explanation
Indices: 33931554--33932045 Score: 867
Period size: 248 Copynumber: 2.0 Consensus size: 248
33931544 CGATACATTT
33931554 ATTAAGTACCCGTTCATCTCATCTTTTCGATGTTTCCTAGAGAACTTTCCCAATATTTTCTCTTC
1 ATTAAGTACCCGTTCATCTCATCTTTTCGATGTTTCCTAGAGAACTTTCCCAATATTTTCTCTTC
* * *
33931619 CAGACTTCCTAATATCTCATTACATAAGAAACTACTATACGTAATTGAGCTAATATAAAAATTTC
66 CAGACTTCCTAATATCTCATTACATAAGAAACCACTATACATAATTAAGCTAATATAAAAATTTC
33931684 ATATTTGCTAATTTACAAATCATATTCAGGAATGATCATTAGGAAGTACATCCTAAAGCTCCTAT
131 ATATTTGCTAATTTACAAATCATATTCAGGAATGATCATTAGGAAGTACATCCTAAAGCTCCTAT
* *
33931749 TATCATAGTGAAACATCTTGAAGGGATCAACAAAAAGGCAGTAAAAATATCTC
196 TAACATAGTGAAACATCTTGAAGGGATCAACAAAAAGGCAATAAAAATATCTC
* *
33931802 ATTAGGTACCCGTTCATCTCATCTTTTTGATGTTTCCTAGAGAACTTTCCCAATATTTTCTCTTC
1 ATTAAGTACCCGTTCATCTCATCTTTTCGATGTTTCCTAGAGAACTTTCCCAATATTTTCTCTTC
* **
33931867 TAGACTTCCTAATATCTCATTACATAAGAAACCACTATACATAATTAAGCTAATATAAATTTTTC
66 CAGACTTCCTAATATCTCATTACATAAGAAACCACTATACATAATTAAGCTAATATAAAAATTTC
* *
33931932 ATCTTTGCTAATTTACAAATCATATTCAGGAATGATCATTAGGAAGTACATCCTGAAGCTCCTAT
131 ATATTTGCTAATTTACAAATCATATTCAGGAATGATCATTAGGAAGTACATCCTAAAGCTCCTAT
*
33931997 TAACATAGTGAAACATCTTGAAGGGATCAATAAAAAGGCAATAAAAATA
196 TAACATAGTGAAACATCTTGAAGGGATCAACAAAAAGGCAATAAAAATA
33932046 ATAAATTTCT
Statistics
Matches: 231, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
248 231 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (248 bp):
ATTAAGTACCCGTTCATCTCATCTTTTCGATGTTTCCTAGAGAACTTTCCCAATATTTTCTCTTC
CAGACTTCCTAATATCTCATTACATAAGAAACCACTATACATAATTAAGCTAATATAAAAATTTC
ATATTTGCTAATTTACAAATCATATTCAGGAATGATCATTAGGAAGTACATCCTAAAGCTCCTAT
TAACATAGTGAAACATCTTGAAGGGATCAACAAAAAGGCAATAAAAATATCTC
Found at i:33936406 original size:203 final size:203
Alignment explanation
Indices: 33936057--33936451 Score: 700
Period size: 203 Copynumber: 1.9 Consensus size: 203
33936047 TATACGAGTG
* *
33936057 TGATCTGGTTCTAGGTGTTCAATGGCGCCTTTCTTTGGGAACCATTGTGTGGAGTTTCAGCTCAT
1 TGATCTGGTTCTAGGTGTTCAATAGCGCCTTTCTTTGGGAACAATTGTGTGGAGTTTCAGCTCAT
*
33936122 TGACCATGCAGTTCACTCTTGATTTCCATCATTGTGTGCTACAAAGCATTGAACCAAGCACCAGT
66 TGACCATGCAGTTCACTCTTGATTTCCATCATTGTGTGCTACAAAGCATTAAACCAAGCACCAGT
33936187 CAACTAGTTGAGAAGCCTCAATCCACTAAGTGCATCTCCCTTATAGATCAGTTAATAGGGCCTTG
131 CAACTAGTTGAGAAGCCTCAATCCACTAAGTGCATCTCCCTTATAGATCAGTTAATAGGGCCTTG
33936252 TTGTTGGT
196 TTGTTGGT
33936260 TGATCTGGTTCTAGGTGTTCAATAGCGCCTTTCTTTGGGAACAATTGTGTGGAGTTTCAGCTCAT
1 TGATCTGGTTCTAGGTGTTCAATAGCGCCTTTCTTTGGGAACAATTGTGTGGAGTTTCAGCTCAT
* * * *
33936325 TGACCATGCAGTTCACTCTTGATTTCCATCCTTGTGTGCTGCAAAGCATTAAACTAAGCACCATT
66 TGACCATGCAGTTCACTCTTGATTTCCATCATTGTGTGCTACAAAGCATTAAACCAAGCACCAGT
* **
33936390 CAGCTAGTTGAGAAGCCTCAATCCACTAAGTGTTTCTCCCTTATAGATCAGTTAATAGGGCC
131 CAACTAGTTGAGAAGCCTCAATCCACTAAGTGCATCTCCCTTATAGATCAGTTAATAGGGCC
33936452 ATGTGCCTTG
Statistics
Matches: 182, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
203 182 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (203 bp):
TGATCTGGTTCTAGGTGTTCAATAGCGCCTTTCTTTGGGAACAATTGTGTGGAGTTTCAGCTCAT
TGACCATGCAGTTCACTCTTGATTTCCATCATTGTGTGCTACAAAGCATTAAACCAAGCACCAGT
CAACTAGTTGAGAAGCCTCAATCCACTAAGTGCATCTCCCTTATAGATCAGTTAATAGGGCCTTG
TTGTTGGT
Done.