Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 203 of 433
Found at i:64128333 original size:49 final size:49
Alignment explanation
Indices: 64128276--64128502 Score: 310
Period size: 49 Copynumber: 4.6 Consensus size: 49
64128266 CTAGTATGCA
64128276 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * ** * *
64128325 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * * * * *
64128375 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
64128426 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
64128475 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
64128503 TGTCCTCACA
Statistics
Matches: 154, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 70 0.45
50 47 0.31
51 37 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:64128449 original size:101 final size:98
Alignment explanation
Indices: 64128276--64128500 Score: 306
Period size: 101 Copynumber: 2.3 Consensus size: 98
64128266 CTAGTATGCA
* *
64128276 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
64128341 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCCGATACACG
* * * * *
64128375 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* ** *
64128440 TAGTACTACACATGCGACCAATTATCCGGTACACG
64 TAGTACTACACACGCGACCAACCATCCGATACACG
64128475 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
64128501 TGTGTCCTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
99 28 0.25
100 40 0.36
101 42 0.38
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCGATACACG
Found at i:64134783 original size:51 final size:50
Alignment explanation
Indices: 64134710--64134847 Score: 177
Period size: 51 Copynumber: 2.7 Consensus size: 50
64134700 TAAGATGGTT
* *
64134710 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCCTACCCGATAGC
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGCCTACCCGAT-GC
* * * ** * *
64134761 TTCGATCACGTGAGTAGTACTAAGTTCAGGCTACTACGTGTATCCGATGG
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGCCTACCCGATGC
*
64134811 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAC
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTAC
64134848 ATGTAACAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 34 0.46
51 40 0.54
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (50 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGCCTACCCGATGC
Found at i:64140495 original size:93 final size:93
Alignment explanation
Indices: 64140383--64140553 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
64140373 GCCCATAAGT
* *
64140383 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64140448 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
64140476 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64140541 CGAGTTCGGATGC
66 CGAGTTCGGATGC
64140554 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:64140550 original size:46 final size:46
Alignment explanation
Indices: 64140375--64140555 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
64140365 TGTAACCCGC
* * **
64140375 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
64140421 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
64140471 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
64140514 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
64140556 AACCATCCTA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 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:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:64145363 original size:27 final size:28
Alignment explanation
Indices: 64145333--64145413 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 28
64145323 GGCTGCCAGA
*
64145333 ACAGATATTGTGACAGAGTCACCA-AAT
1 ACAGATATTGTGACAGAGCCACCAGAAT
*
64145360 ACAGATATTGTGGCAGAGCCACCAGAAT
1 ACAGATATTGTGACAGAGCCACCAGAAT
* *
64145388 --AGATATTTGTGGCATAGCCACCAGAA
1 ACAGATA-TTGTGACAGAGCCACCAGAA
64145414 CGCTTCCTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 5 0.10
27 41 0.84
28 3 0.06
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (28 bp):
ACAGATATTGTGACAGAGCCACCAGAAT
Found at i:64153211 original size:28 final size:27
Alignment explanation
Indices: 64153117--64153227 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
64153107 ATGGCTGCCA
* *
64153117 AAACAGATATTGTGACAGAGTCACCAG
1 AAACAGATATTGTGGCAGAGCCACCAG
*
64153144 ATACAGATATTGTGGCAGAGCCACCAG
1 AAACAGATATTGTGGCAGAGCCACCAG
*
64153171 -AACAGATATTTGTGGCATAGCCACCAG
1 AAACAGATA-TTGTGGCAGAGCCACCAG
* *
64153198 AAACAGATATTTGTGGCATAGCTACCAG
1 AAACAGATA-TTGTGGCAGAGCCACCAG
64153226 AA
1 AA
64153228 CGCTTCCTCC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.09
27 41 0.54
28 28 0.37
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
AAACAGATATTGTGGCAGAGCCACCAG
Found at i:64157459 original size:46 final size:46
Alignment explanation
Indices: 64157406--64157581 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
64157396 TATTTGGGCA
64157406 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
64157452 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
64157499 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
64157545 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64157582 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.59
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:64157561 original size:93 final size:93
Alignment explanation
Indices: 64157402--64157573 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
64157392 GGGATATTTG
* * *
64157402 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAG
64157467 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
64157495 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAG
64157560 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
64157574 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:64161820 original size:27 final size:27
Alignment explanation
Indices: 64161790--64161874 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
64161780 GTGCAAATCG
*
64161790 TATTTACCAGTGGCTATGTGCCTATCA
1 TATTTACCAGTGGCTATGTGCCGATCA
* * * *
64161817 TATTTATC-GATGACTCTGTGTCGATCA
1 TATTTACCAG-TGGCTATGTGCCGATCA
*
64161844 TATTTAACCAG-GGCTATGTGCCGATTA
1 TATTT-ACCAGTGGCTATGTGCCGATCA
64161871 TATT
1 TATT
64161875 ACTGTCGCTG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
26 1 0.02
27 41 0.91
28 2 0.04
29 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (27 bp):
TATTTACCAGTGGCTATGTGCCGATCA
Found at i:64164611 original size:27 final size:27
Alignment explanation
Indices: 64164573--64164714 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
64164563 ATGGAGGAAG
64164573 TGTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATGCCACAAATATC
* *
64164600 TGTTCTAGTGGCTATGCCAAAAATATC
1 TGTTCTGGTGGCTATGCCACAAATATC
*
64164627 TGTTCTGGTGGCTATACCACAAATATC
1 TGTTCTGGTGGCTATGCCACAAATATC
* *
64164654 TATTCTGGTGGCTCTGCCAC-AATATC
1 TGTTCTGGTGGCTATGCCACAAATATC
* * * *
64164680 TGTATCTGGTGACTCTGTCAC-AATATT
1 TGT-TCTGGTGGCTATGCCACAAATATC
64164707 TGTTCTGG
1 TGTTCTGG
64164715 AAGCCATGCT
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 13 0.13
27 89 0.87
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
TGTTCTGGTGGCTATGCCACAAATATC
Found at i:64170899 original size:28 final size:28
Alignment explanation
Indices: 64170852--64170920 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
64170842 TTTAAAACCC
* *
64170852 TAGGGGT-ATATCGGTCATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
64170879 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
64170907 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
64170921 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.17, C:0.12, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:64173121 original size:27 final size:27
Alignment explanation
Indices: 64173091--64173403 Score: 374
Period size: 27 Copynumber: 11.6 Consensus size: 27
64173081 TTAGTTTACC
64173091 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
64173118 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
64173145 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * **
64173172 AAATTACCAAAATACCATTGGCTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
64173199 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * * *
64173226 AAATTATTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
64173253 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
64173280 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
64173307 AAATTATCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
64173334 AAATCACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
64173361 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
64173388 AAATTACTGAAATACC
1 AAATTACCAAAATACC
64173404 TTCGACCTGT
Statistics
Matches: 245, Mismatches: 41, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 245 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:64173401 original size:81 final size:81
Alignment explanation
Indices: 64173091--64173457 Score: 391
Period size: 81 Copynumber: 4.5 Consensus size: 81
64173081 TTAGTTTACC
* * * * * * *
64173091 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
*
64173156 ATACCCCTAGTTTGTA
66 ATACCCTTAGTTTGTA
** ** ** * *
64173172 AAATTACCAAAATACCATTGGCTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTATTAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
* *
64173237 ATACCCTTTGTTTATA
66 ATACCCTTAGTTTGTA
64173253 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-TCA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACT-A
64173316 AAATACCCTTAGTTTGTA
64 AAATACCCTTAGTTTGTA
* * * * *
64173334 AAATCACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
* **
64173399 ATA-CCTTCGACCTGTA
66 ATACCCTTAG-TTTGTA
*** * *
64173415 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACC
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACC
64173458 ATTGATTTAC
Statistics
Matches: 242, Mismatches: 38, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
80 10 0.04
81 230 0.95
82 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
ATACCCTTAGTTTGTA
Found at i:64173457 original size:27 final size:27
Alignment explanation
Indices: 64173091--64173457 Score: 273
Period size: 27 Copynumber: 13.6 Consensus size: 27
64173081 TTAGTTTACC
*
64173091 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * * *
64173118 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
64173145 AAATCACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * ** **
64173172 AAATTACCAAAATACCATTGGCTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
64173199 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** * *
64173226 AAATTATTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
64173253 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
64173280 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
64173307 AAATTATCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
64173334 AAATCACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
*
64173361 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** * **
64173388 AAATTACTGAAATACCTTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
64173415 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
64173442 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
64173458 ATTGATTTAC
Statistics
Matches: 276, Mismatches: 52, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
27 271 0.98
28 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:64173527 original size:27 final size:27
Alignment explanation
Indices: 64173497--64173744 Score: 365
Period size: 27 Copynumber: 9.2 Consensus size: 27
64173487 TGATTTACAA
64173497 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
64173524 AATTA-CTGAAATACCCCTGTAGGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
*
64173551 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
64173578 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
64173605 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
64173632 AATTATCGCAATACCCATGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
64173659 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
64173686 AATTATCAAAATACTCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
64173713 AATTA-CTAAAATACCCCTGTAGGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
64173740 AATTA
1 AATTA
64173745 CTGAGATACC
Statistics
Matches: 200, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
26 2 0.01
27 197 0.99
28 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:64173745 original size:27 final size:27
Alignment explanation
Indices: 64173504--64173771 Score: 346
Period size: 27 Copynumber: 10.0 Consensus size: 27
64173494 CAAAATTATC
64173504 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
64173531 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
64173558 GAAATACCCCTGTAGGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
64173584 CGCAATACCCCTGTAGGGTAGAATTACC
1 -GAAATACCCCTGTAGGGTAGAATTACT
*
64173612 GAAATACCCCTGTAAGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
64173638 CGCAATACCCATGTAGGGTAGAATTACC
1 -GAAATACCCCTGTAGGGTAGAATTACT
64173666 GAAATACCCCTGTAGGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
64173692 CAAAATACTCTTGTAGGGTAGAATTACT
1 -GAAATACCCCTGTAGGGTAGAATTACT
*
64173720 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
64173747 GAGATA-CCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
64173772 CATTTTGCCC
Statistics
Matches: 211, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
26 16 0.08
27 194 0.92
28 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:64174251 original size:22 final size:22
Alignment explanation
Indices: 64174199--64174263 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
64174189 TTAAAGCCTT
* *
64174199 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
64174221 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
64174243 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
64174264 ACGTATTTGC
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:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:64175017 original size:18 final size:17
Alignment explanation
Indices: 64174989--64175022 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
64174979 GACCTTAGCC
64174989 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
64175006 CATTATCAGAATTAGAA
1 CATTA-CAGAATAAGAA
64175023 CCAAAATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:64175040 original size:6 final size:6
Alignment explanation
Indices: 64175010--64175201 Score: 123
Period size: 6 Copynumber: 32.3 Consensus size: 6
64175000 AAGAAACATT
* * * * * *
64175010 ATCAGA ATTAGA ACCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAAA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
64175059 ATCAGA AT--GA CTCAGT ATCAGTA A-CAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
64175105 ATCAGA ATCAG- GTGACAAA ATCAGA AT--GA CTCAGT ATCAGTA A-CAGA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA
* * *
64175152 ATCAGA ATCAGA ATCAGA ATCAGT ATTAGTA A-CAGA ATCAGA ACCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA ATCAGA ATCAGA
64175200 AT
1 AT
64175202 GTGAATGCAA
Statistics
Matches: 140, Mismatches: 30, Indels: 32
0.69 0.15 0.16
Matches are distributed among these distances:
4 6 0.04
5 8 0.06
6 117 0.84
7 7 0.05
8 2 0.01
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:64175105 original size:65 final size:65
Alignment explanation
Indices: 64175031--64175174 Score: 288
Period size: 65 Copynumber: 2.2 Consensus size: 65
64175021 AACCAAAATG
64175031 AGAATCAGAATCAGAATCAGGTGACAAAATCAGAATGACTCAGTATCAGTAACAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAAAATCAGAATGACTCAGTATCAGTAACAGAATCAGAATC
64175096 AGAATCAGAATCAGAATCAGGTGACAAAATCAGAATGACTCAGTATCAGTAACAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAAAATCAGAATGACTCAGTATCAGTAACAGAATCAGAATC
64175161 AGAATCAGAATCAG
1 AGAATCAGAATCAG
64175175 TATTAGTAAC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 79 1.00
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.18
Consensus pattern (65 bp):
AGAATCAGAATCAGAATCAGGTGACAAAATCAGAATGACTCAGTATCAGTAACAGAATCAGAATC
Found at i:64175360 original size:27 final size:26
Alignment explanation
Indices: 64175319--64175398 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
64175309 AGCATGGCTG
* *
64175319 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
64175345 CCAGATACAGATATTGTGGCTGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * * *
64175372 CCAAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATATTGTGACAGAGCCA
64175398 C
1 C
64175399 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
26 24 0.53
27 21 0.47
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:64175747 original size:27 final size:26
Alignment explanation
Indices: 64175708--64175790 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
64175698 TCGATTGGTC
* * *
64175708 AACAGATGTTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
64175734 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
64175761 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
64175788 AAC
1 AAC
64175791 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:64176047 original size:27 final size:27
Alignment explanation
Indices: 64176017--64176261 Score: 296
Period size: 27 Copynumber: 9.1 Consensus size: 27
64176007 GCAAAATGGA
* * *
64176017 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
64176044 AATTCTACCCTATAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* * *
64176071 ATTTTTACCCTACAAGGGTATTTCGAT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
64176098 AATACTACCCTA-AAGGGGTATTTCAGT
1 AATTCTACCCTACAA-GGGTATTTCGGT
* *
64176125 AATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
64176152 AATTCTACCCTACATGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
64176179 AATTCTACCCTAC-AGGCATATTTCGGT
1 AATTCTACCCTACAAGG-GTATTTCGGT
*
64176206 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* * *
64176233 AATTCTACCATACAGGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCGGT
64176260 AA
1 AA
64176262 ATTCACAATC
Statistics
Matches: 189, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.02
27 182 0.96
28 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGGT
Found at i:64176061 original size:54 final size:54
Alignment explanation
Indices: 64176002--64176115 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
64175992 TTTAACATTC
* *
64176002 TAGGGGCAAAAT-GGAAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTA
1 TAGGGG-AAAATCGGAAATTTTACCCCACAAGGGTATCTCGATAATACTACCCTA
* ** * * * *
64176056 TAGGGGTATTTCGGTATTTTTACCCTACAAGGGTATTTCGATAATACTACCCTA
1 TAGGGGAAAATCGGAAATTTTACCCCACAAGGGTATCTCGATAATACTACCCTA
*
64176110 AAGGGG
1 TAGGGG
64176116 TATTTCAGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 47 0.96
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (54 bp):
TAGGGGAAAATCGGAAATTTTACCCCACAAGGGTATCTCGATAATACTACCCTA
Found at i:64176302 original size:27 final size:27
Alignment explanation
Indices: 64176268--64176656 Score: 451
Period size: 27 Copynumber: 14.4 Consensus size: 27
64176258 GTAAATTCAC
* **
64176268 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
**
64176295 AATTGAGGGTAAAAC-GATAATTCTGTA
1 AATCAAGGGTAAAACAG-TAATTCTGTA
* * * *
64176322 ACTCAAAGGTAAAATAGTGATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
* *
64176349 AATCAAGGGTAAAACGGTAATTCTGTG
1 AATCAAGGGTAAAACAGTAATTCTGTA
*
64176376 AATCGAGGGTAAAAC-GATAATTCTGTA
1 AATCAAGGGTAAAACAG-TAATTCTGTA
* *
64176403 ACTCAAGGGTAAAACAGTGATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
* *
64176430 AATCAAGGGTAAAACGGTAATTCTGTG
1 AATCAAGGGTAAAACAGTAATTCTGTA
* * *
64176457 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTGTA
*
64176484 AATCGAGGGTAAAAC-GATAATTCTGTA
1 AATCAAGGGTAAAACAG-TAATTCTGTA
* *
64176511 ACTCAAGGGTAAAACAGTGATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
* *
64176538 AATCAATGGTAAAACAGTAATTCTGTG
1 AATCAAGGGTAAAACAGTAATTCTGTA
* *
64176565 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTGTA
* *
64176592 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
* *
64176619 AATCAAGAGTAAAACGGTAATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
*
64176646 AATCAGGGGTA
1 AATCAAGGGTA
64176657 CTTTGGTAAT
Statistics
Matches: 307, Mismatches: 49, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
26 3 0.01
27 301 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCAAGGGTAAAACAGTAATTCTGTA
Found at i:64176667 original size:108 final size:108
Alignment explanation
Indices: 64176268--64176656 Score: 546
Period size: 108 Copynumber: 3.6 Consensus size: 108
64176258 GTAAATTCAC
* * ** * *
64176268 AATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAAC-GATAATTCTGTAACTCAAAGGT
1 AATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAG-TAATTCTGTAAATCAAGGGT
* * * * * * *
64176332 AAAATAGTGATTCTGTAAATCAAGGGTAAAACGGTAATTCTGTG
65 AAAACAGTAATTCTGTGAATCGAGGGTAAAACAGTAATTCTATA
* *
64176376 AATCGAGGGTAAAACGATAATTCTGTAACTCAAGGGTAAAACAGTGATTCTGTAAATCAAGGGTA
1 AATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTA
* *
64176441 AAACGGTAATTCTGTGAATCGAGGGTAAAATAGTAATTCTATA
66 AAACAGTAATTCTGTGAATCGAGGGTAAAACAGTAATTCTATA
* * *
64176484 AATCGAGGGTAAAACGATAATTCTGTAACTCAAGGGTAAAACAGTGATTCTGTAAATCAATGGTA
1 AATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTA
64176549 AAACAGTAATTCTGTGAATCGAGGGTAAAACAGTAATTCTATA
66 AAACAGTAATTCTGTGAATCGAGGGTAAAACAGTAATTCTATA
* * * *
64176592 AATCGAGGGTAAAACAATAATTCTGTAAATCAAGAGTAAAACGGTAATTCTGTAAATCAGGGGTA
1 AATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTA
64176657 CTTTGGTAAT
Statistics
Matches: 253, Mismatches: 27, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
108 252 1.00
109 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (108 bp):
AATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTA
AAACAGTAATTCTGTGAATCGAGGGTAAAACAGTAATTCTATA
Found at i:64176682 original size:27 final size:27
Alignment explanation
Indices: 64176645--64176775 Score: 131
Period size: 27 Copynumber: 4.9 Consensus size: 27
64176635 GTAATTCTGT
* *
64176645 AAATCAGGGGTACTTTGGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTAC
* ** *
64176672 AAGTCAAGGGTATTTCAGT-ATTTTCAA
1 AAATCAAGGGTATTTTGGTAATTTT-AC
* *
64176699 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTAC
* *
64176726 AAACCAAGGGTATTTTGGTAATTTTGC
1 AAATCAAGGGTATTTTGGTAATTTTAC
*
64176753 AAA-CTAGGGGTATTTTGGTAATT
1 AAATC-AAGGGTATTTTGGTAATT
64176776 GGTAAACTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
26 6 0.07
27 73 0.87
28 5 0.06
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
AAATCAAGGGTATTTTGGTAATTTTAC
Found at i:64176708 original size:54 final size:54
Alignment explanation
Indices: 64176635--64176775 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
64176625 GAGTAAAACG
* * * * **
64176635 GTAATTCTGTAAATCAGGGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCA
1 GTAATTTTGCAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCA
**
64176689 GT-ATTTT-CAAAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
1 GTAATTTTGC--AAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCA
*
64176743 GTAATTTTGCAAACTAGGGGTATTTTGGTAATT
1 GTAATTTTGCAAATTAGGGGTATTTTGGTAATT
64176776 GGTAAACTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
53 4 0.05
54 64 0.86
55 5 0.07
56 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (54 bp):
GTAATTTTGCAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCA
Found at i:64176782 original size:26 final size:25
Alignment explanation
Indices: 64176703--64176784 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 25
64176693 TTTCAAAAAT
*
64176703 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTGT--AAAC
* * *
64176730 CAAGGGTATTTTGGTAATTTTGCAAAC
1 TAGGGGTATTTTGGTAA--TTGTAAAC
64176757 TAGGGGTATTTTGGTAATTGGTAAAC
1 TAGGGGTATTTTGGTAATT-GTAAAC
64176783 TA
1 TA
64176785 AAGTATTCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.04
26 7 0.16
27 34 0.76
29 2 0.04
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.39
Consensus pattern (25 bp):
TAGGGGTATTTTGGTAATTGTAAAC
Found at i:64177704 original size:27 final size:26
Alignment explanation
Indices: 64177674--64177727 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
64177664 TATTACCTAT
64177674 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTATGCCAC-AATATCTG
*
64177701 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTATGCCACAATATCTG
64177727 T
1 T
64177728 ATCTAGTGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTG
Found at i:64177740 original size:27 final size:26
Alignment explanation
Indices: 64177686--64177753 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
64177676 CTGGTGGCTA
* *
64177686 TGCCACAAATATCTGTTCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTAGTGACTC
64177713 TGCCACAATATCTGTATCTAGTGACTC
1 TGCCACAATATCTGT-TCTAGTGACTC
**
64177740 TATCACAATATCTG
1 TGCCACAATATCTG
64177754 ATAACTGAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 9 0.25
27 27 0.75
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTAGTGACTC
Found at i:64177928 original size:6 final size:6
Alignment explanation
Indices: 64177890--64178041 Score: 71
Period size: 6 Copynumber: 24.3 Consensus size: 6
64177880 TTGCATTCAC
* * *
64177890 ATTCTG ATTTTTG ATTCT- ATTATCTG ATACTG ATTCTG ATTTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG A-T-TCTG ATTCTG ATTCTG A-TTCTG ATTCTG
* * * * * *
64177941 -TTACCTC ATACTG ATTCTG ATTTTG ATTCTG -TTACAGG ATACTG ATTCTA
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG
* *
64177991 ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
64178040 AT
1 AT
64178042 AATGTTTCTT
Statistics
Matches: 108, Mismatches: 22, Indels: 32
0.67 0.14 0.20
Matches are distributed among these distances:
5 7 0.06
6 76 0.70
7 21 0.19
8 4 0.04
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:64177968 original size:31 final size:31
Alignment explanation
Indices: 64177890--64178032 Score: 169
Period size: 31 Copynumber: 4.5 Consensus size: 31
64177880 TTGCATTCAC
* *
64177890 ATTCTGATTTTTGATTCTATTATCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
64177922 ATTCTGATTTTTGATTCTGTTACCTCATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
**
64177954 ATTCTGATTTTGATTCTGTTACAGGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
64177985 ATTCTAATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
64178016 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
64178033 AGTTCTGATA
Statistics
Matches: 97, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
31 61 0.63
32 36 0.37
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:64185232 original size:45 final size:45
Alignment explanation
Indices: 64185151--64185267 Score: 134
Period size: 45 Copynumber: 2.6 Consensus size: 45
64185141 TGGCATTTCA
*
64185151 CCTGTTAGGCTCG-AGGCCCG-ATATCAGTTCACCGGCATTATAG
1 CCTGCTAGGCTCGAAGGCCCGAATATCAGTTCACCGGCATTATAG
64185194 CCTGCTAGGCTCGAAGGCCCGAATAGT-A-TCTCACCGGCATTATAG
1 CCTGCTAGGCTCGAAGGCCCGAATA-TCAGT-TCACCGGCATTATAG
** * *
64185239 TTTGCTAAGCTCAAAGGCCCGAATTATCA
1 CCTGCTAGGCTCGAAGGCCCGAA-TATCA
64185268 AGTCAACAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
43 12 0.19
44 8 0.13
45 39 0.62
46 4 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (45 bp):
CCTGCTAGGCTCGAAGGCCCGAATATCAGTTCACCGGCATTATAG
Found at i:64185651 original size:43 final size:43
Alignment explanation
Indices: 64185590--64185765 Score: 284
Period size: 43 Copynumber: 4.1 Consensus size: 43
64185580 CTGGCATTAC
* * *
64185590 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCTGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
64185633 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
64185676 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
* * *
64185719 GCCTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
64185760 GCCTGC
1 GCCTGC
64185766 GGGATTTATC
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 110 0.87
ACGTcount: A:0.30, C:0.34, G:0.24, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
Found at i:64185791 original size:38 final size:37
Alignment explanation
Indices: 64185737--64185819 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 37
64185727 GGCACGAAGG
* * *
64185737 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGC-GGATTTAA
*
64185775 CCCGGATATAATACCAGCACGAAGCCTGCGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGATTTAA
64185812 CCCGAATA
1 CCCGAATA
64185820 CACATCAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 14 0.35
38 26 0.65
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (37 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGATTTAA
Found at i:64194497 original size:17 final size:17
Alignment explanation
Indices: 64194471--64194512 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
64194461 GTTTACCCAT
*
64194471 GTGGGCCCCACATACCC
1 GTGGGGCCCACATACCC
*
64194488 GTGGGGCCCACATGCCC
1 GTGGGGCCCACATACCC
*
64194505 TTGGGGCC
1 GTGGGGCC
64194513 TGTACAACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.40, G:0.33, T:0.14
Consensus pattern (17 bp):
GTGGGGCCCACATACCC
Found at i:64197362 original size:13 final size:13
Alignment explanation
Indices: 64197346--64197377 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
64197336 GAAAGCCATC
64197346 AGCAAATGAGCGA
1 AGCAAATGAGCGA
*
64197359 AGCAAATGAGTGA
1 AGCAAATGAGCGA
64197372 AGCAAA
1 AGCAAA
64197378 GGAACAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.28, T:0.09
Consensus pattern (13 bp):
AGCAAATGAGCGA
Found at i:64201036 original size:21 final size:21
Alignment explanation
Indices: 64201012--64201051 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
64201002 TCCTAGGATT
*
64201012 TGAATTGAATTAAATTGAATA
1 TGAAATGAATTAAATTGAATA
*
64201033 TGAAATGGATTAAATTGAA
1 TGAAATGAATTAAATTGAA
64201052 GTTAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.35
Consensus pattern (21 bp):
TGAAATGAATTAAATTGAATA
Found at i:64202924 original size:15 final size:15
Alignment explanation
Indices: 64202904--64202932 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
64202894 TAAGGTTAGC
64202904 TAATGTAAATTATGT
1 TAATGTAAATTATGT
64202919 TAATGTAAATTATG
1 TAATGTAAATTATG
64202933 AAATAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (15 bp):
TAATGTAAATTATGT
Found at i:64204003 original size:515 final size:515
Alignment explanation
Indices: 64203032--64204062 Score: 2044
Period size: 515 Copynumber: 2.0 Consensus size: 515
64203022 AGGTTATGGT
64203032 GCTTGCATGGTATGTTTTACCACTCCATTTTTAATGATTGTTATGTTTTTGGAGTCGTTGTAACC
1 GCTTGCATGGTATGTTTTACCACTCCATTTTTAATGATTGTTATGTTTTTGGAGTCGTTGTAACC
*
64203097 TAATTTAGCTAGCCTAGTGACTAATTTTTGAAACTGTTAAAATTCTAGGGTTTTACCATTGATAA
66 TAATTTAGCTAGCCTAGTGACTAATTTTTGAAACTATTAAAATTCTAGGGTTTTACCATTGATAA
64203162 ATATGTATGTGTTTTGAAGTTTAATGGTAGAAAATGAATGGTTGTTGTTAGATAAATAGCATTTG
131 ATATGTATGTGTTTTGAAGTTTAATGGTAGAAAATGAATGGTTGTTGTTAGATAAATAGCATTTG
64203227 TAAAGTATTTTTTGTTGAAAATAACAAATAGGGATTTATTTGTAAAATGTGAAACTTATATGGTA
196 TAAAGTATTTTTTGTTGAAAATAACAAATAGGGATTTATTTGTAAAATGTGAAACTTATATGGTA
64203292 AATGTGAGAAACAATAAAAATTTTGGGCTGCTATGAGTCTATATAGAATTCGGCTAGTATGGGTT
261 AATGTGAGAAACAATAAAAATTTTGGGCTGCTATGAGTCTATATAGAATTCGGCTAGTATGGGTT
64203357 GAAATCGAATTGCATGAATATTTCATTTTCATGAGCTAGGGGCTAAATTGTAAAAAATTCAAAAT
326 GAAATCGAATTGCATGAATATTTCATTTTCATGAGCTAGGGGCTAAATTGTAAAAAATTCAAAAT
64203422 TTAAGGGACAAAAGTGTAATTTTTACCAATACATGATTTTTTGGTTAATTGAATAGAATGATATT
391 TTAAGGGACAAAAGTGTAATTTTTACCAATACATGATTTTTTGGTTAATTGAATAGAATGATATT
64203487 TGAATAAGTTAAATTTGATTATATAGATAAAGTAAAGCAACGTACGGGTCTAGATCGAGG
456 TGAATAAGTTAAATTTGATTATATAGATAAAGTAAAGCAACGTACGGGTCTAGATCGAGG
64203547 GCTTGCATGGTATGTTTTACCACTCCATTTTTAATGATTGTTATGTTTTTGGAGTCGTTGTAACC
1 GCTTGCATGGTATGTTTTACCACTCCATTTTTAATGATTGTTATGTTTTTGGAGTCGTTGTAACC
64203612 TAATTTAGCTAGCCTAGTGACTAATTTTTGAAACTATTAAAATTCTAGGGTTTTACCATTGATAA
66 TAATTTAGCTAGCCTAGTGACTAATTTTTGAAACTATTAAAATTCTAGGGTTTTACCATTGATAA
64203677 ATATGTATGTGTTTTGAAGTTTAATGGTAGAAAATGAATGGTTGTTGTTAGATAAATAGCATTTG
131 ATATGTATGTGTTTTGAAGTTTAATGGTAGAAAATGAATGGTTGTTGTTAGATAAATAGCATTTG
64203742 TAAAGTATTTTTTGTTGAAAATAACAAATAGGGATTTATTTGTAAAATGTGAAACTTATATGGTA
196 TAAAGTATTTTTTGTTGAAAATAACAAATAGGGATTTATTTGTAAAATGTGAAACTTATATGGTA
*
64203807 AATGTGAGAAACAATAAAAATTTTGGGCTGCTATGAGTCTATATGGAATTCGGCTAGTATGGGTT
261 AATGTGAGAAACAATAAAAATTTTGGGCTGCTATGAGTCTATATAGAATTCGGCTAGTATGGGTT
64203872 GAAATCGAATTGCATGAATATTTCATTTTCATGAGCTAGGGGCTAAATTGTAAAAAATTCAAAAT
326 GAAATCGAATTGCATGAATATTTCATTTTCATGAGCTAGGGGCTAAATTGTAAAAAATTCAAAAT
64203937 TTAAGGGACAAAAGTGTAATTTTTACCAATACATGATTTTTTGGTTAATTGAATAGAATGATATT
391 TTAAGGGACAAAAGTGTAATTTTTACCAATACATGATTTTTTGGTTAATTGAATAGAATGATATT
64204002 TGAATAAGTTAAATTTGATTATATAGATAAAGTAAAGCAACGTACGGGTCTAGATCGAGG
456 TGAATAAGTTAAATTTGATTATATAGATAAAGTAAAGCAACGTACGGGTCTAGATCGAGG
64204062 G
1 G
64204063 AAAGATAAAG
Statistics
Matches: 514, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
515 514 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (515 bp):
GCTTGCATGGTATGTTTTACCACTCCATTTTTAATGATTGTTATGTTTTTGGAGTCGTTGTAACC
TAATTTAGCTAGCCTAGTGACTAATTTTTGAAACTATTAAAATTCTAGGGTTTTACCATTGATAA
ATATGTATGTGTTTTGAAGTTTAATGGTAGAAAATGAATGGTTGTTGTTAGATAAATAGCATTTG
TAAAGTATTTTTTGTTGAAAATAACAAATAGGGATTTATTTGTAAAATGTGAAACTTATATGGTA
AATGTGAGAAACAATAAAAATTTTGGGCTGCTATGAGTCTATATAGAATTCGGCTAGTATGGGTT
GAAATCGAATTGCATGAATATTTCATTTTCATGAGCTAGGGGCTAAATTGTAAAAAATTCAAAAT
TTAAGGGACAAAAGTGTAATTTTTACCAATACATGATTTTTTGGTTAATTGAATAGAATGATATT
TGAATAAGTTAAATTTGATTATATAGATAAAGTAAAGCAACGTACGGGTCTAGATCGAGG
Found at i:64207178 original size:85 final size:85
Alignment explanation
Indices: 64207060--64207241 Score: 337
Period size: 85 Copynumber: 2.1 Consensus size: 85
64207050 CGATTCAAAA
*
64207060 TAGCTTCGGCTATTTGAGGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
1 TAGCTTCGGCTATTTGAGGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
*
64207125 CTAAGTGTGTAGAATCGTTC
66 CTAAGTGTGCAGAATCGTTC
64207145 TAGCTTCGGCTATTTGAGGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
1 TAGCTTCGGCTATTTGAGGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
64207210 CTAAGTGTGCAGAATCGTTC
66 CTAAGTGTGCAGAATCGTTC
*
64207230 TAGCTTCAGCTA
1 TAGCTTCGGCTA
64207242 ACCCTTAAAG
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (85 bp):
TAGCTTCGGCTATTTGAGGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
CTAAGTGTGCAGAATCGTTC
Found at i:64207236 original size:44 final size:44
Alignment explanation
Indices: 64207036--64207219 Score: 204
Period size: 41 Copynumber: 4.3 Consensus size: 44
64207026 CAATGGTATT
* * * *
64207036 TGGCACTAAGTGTGCGAT-TCAAAATAGCTTCGGCT-ATT-TGA
1 TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTAATTCAGA
64207077 -GGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTAATTCAGA
1 TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTAATTCAGA
* *** * *
64207120 TGGCACTAAGTGTGTAGA-ATCGTTCTAGCTTCGGCT-ATT-TGA
1 TGGCACTAAGTGTG-CGATATCGAGATAGCTTCGGTTAATTCAGA
*
64207162 -GGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGA
1 TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTAATTCAGA
64207205 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
64207220 AGAATCGTTC
Statistics
Matches: 116, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
40 19 0.16
41 40 0.34
42 8 0.07
43 7 0.06
44 40 0.34
45 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (44 bp):
TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTAATTCAGA
Found at i:64209615 original size:40 final size:39
Alignment explanation
Indices: 64209554--64209705 Score: 161
Period size: 40 Copynumber: 3.8 Consensus size: 39
64209544 TTTGGTGGCT
*
64209554 TTAGCGGCGC-TTTCTAAAAACGTCGCTAAAGATCGAGTA
1 TTAGCGGCGCTTTTCTAAAAACGCCGCTAAAGATC-AGTA
* * *
64209593 TTAGCGGTGCTTTTCTAAAAACGCCGCTATATG-TACACCT-
1 TTAGCGGCGCTTTTCTAAAAACGCCGCTA-AAGAT-CA-GTA
*
64209633 TTAGCGGCGCTTTT-TAGAAAACGCCGCTAAAGATCAAGCA
1 TTAGCGGCGCTTTTCTA-AAAACGCCGCTAAAGATC-AGTA
64209673 TTAGCGGCG-TTTTCTAAAAAGCGCCGCTAAAGA
1 TTAGCGGCGCTTTTCTAAAAA-CGCCGCTAAAGA
64209706 ATTTTGTAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 19
0.78 0.07 0.16
Matches are distributed among these distances:
39 22 0.23
40 69 0.73
41 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (39 bp):
TTAGCGGCGCTTTTCTAAAAACGCCGCTAAAGATCAGTA
Found at i:64209691 original size:79 final size:80
Alignment explanation
Indices: 64209552--64209701 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
64209542 CCTTTGGTGG
* * * *
64209552 CTTTAGCGGCGCTTTCTAAAAACGTCGCTAAAGATCGAGTATTAGCGGTGCTTTTCTAAAAA-CG
1 CTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTTCTAAAAAGCG
64209616 CCGCTATATGTACAC
66 CCGCTATATGTACAC
*
64209631 CTTTAGCGGCGCTTTTTAGAAAACGCCGCTAAAGATCAAGCATTAGCGGCG-TTTTCTAAAAAGC
1 CTTTAGCGGCGCTTTCTA-AAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTTCTAAAAAGC
64209695 GCCGCTA
65 GCCGCTA
64209702 AAGAATTTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
79 28 0.44
80 36 0.56
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (80 bp):
CTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTTCTAAAAAGCG
CCGCTATATGTACAC
Found at i:64209808 original size:40 final size:40
Alignment explanation
Indices: 64209723--64209872 Score: 178
Period size: 40 Copynumber: 3.7 Consensus size: 40
64209713 AATTTAGTGG
* * * *
64209723 CTTTAGCGGCGCTTTTTTAAGAAACGCCCCTATAAG-TAC-AC
1 CTTTAGCGGCGC-TTTTTAAAAAACGCCACTA-ATGCT-CGAT
64209764 CTTTAGCGGCGCTTTTTAAAAAACGCCACTAATGCTCGAT
1 CTTTAGCGGCGCTTTTTAAAAAACGCCACTAATGCTCGAT
* * *
64209804 CTTTAGCGGCGTTTTTTGAAAAACGCCGCTAATGCTCGAT
1 CTTTAGCGGCGCTTTTTAAAAAACGCCACTAATGCTCGAT
* *
64209844 CTTTAGCGGTGTTTTTTAAAAAACGCCAC
1 CTTTAGCGGCGCTTTTTAAAAAACGCCAC
64209873 AAAAATAGAA
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.85
41 12 0.12
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTAAAAAACGCCACTAATGCTCGAT
Found at i:64209810 original size:133 final size:132
Alignment explanation
Indices: 64209593--64209835 Score: 353
Period size: 133 Copynumber: 1.8 Consensus size: 132
64209583 AGATCGAGTA
* * * *
64209593 TTAGCGGTGCTTTTCTAAAAACGCCGCTATATGTACACCTTTAGCGGCGCTTTTTAGAAAACGCC
1 TTAGCGGCGCTTTTCTAAAAACGCCCCTATAAGTACACCTTTAGCGGCGCTTTTTAAAAAACGCC
*
64209658 GCTAAAGATCAAGCATTAGCGGCGTTTTCT-AAAAAGCGCCGCTAAAGAATTTTGTAATTTAGTG
66 ACTAAAGATCAAGCATTAGCGGCGTTTTCTGAAAAA-CGCCGCTAAAGAATTTTGTAATTTAGTG
64209722 GCT
130 GCT
*
64209725 TTAGCGGCGCTTTTTTAAGAAACGCCCCTATAAGTACACCTTTAGCGGCGCTTTTTAAAAAACGC
1 TTAGCGGCGCTTTTCTAA-AAACGCCCCTATAAGTACACCTTTAGCGGCGCTTTTTAAAAAACGC
* * * * * *
64209790 CACTAATGCTCGATCTTTAGCGGCGTTTTTTGAAAAACGCCGCTAA
65 CACTAAAGATCAAGCATTAGCGGCGTTTTCTGAAAAACGCCGCTAA
64209836 TGCTCGATCT
Statistics
Matches: 97, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
132 16 0.16
133 76 0.78
134 5 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (132 bp):
TTAGCGGCGCTTTTCTAAAAACGCCCCTATAAGTACACCTTTAGCGGCGCTTTTTAAAAAACGCC
ACTAAAGATCAAGCATTAGCGGCGTTTTCTGAAAAACGCCGCTAAAGAATTTTGTAATTTAGTGG
CT
Found at i:64210121 original size:7 final size:7
Alignment explanation
Indices: 64210084--64210135 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
64210074 ACTATTGTAA
64210084 GGTTTAT
1 GGTTTAT
64210091 -GTATTAT
1 GGT-TTAT
*
64210098 GGGTTTAG
1 -GGTTTAT
*
64210106 GGATTAT
1 GGTTTAT
64210113 GGTTTAT
1 GGTTTAT
64210120 GGTTTAT
1 GGTTTAT
64210127 GGTTTAT
1 GGTTTAT
64210134 GG
1 GG
64210136 GTTAAAGGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 2 0.05
7 31 0.82
8 3 0.08
9 2 0.05
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (7 bp):
GGTTTAT
Found at i:64210138 original size:22 final size:22
Alignment explanation
Indices: 64210099--64210206 Score: 78
Period size: 22 Copynumber: 5.0 Consensus size: 22
64210089 ATGTATTATG
*
64210099 GGTTTAGGGATTATGGTTTAT-
1 GGTTTAGGGTTTATGGTTTATG
* * **
64210120 GGTTTATGGTTTATGGGTTAAA
1 GGTTTAGGGTTTATGGTTTATG
* *
64210142 GG-TTAGGGTTTAAGTTTTA-G
1 GGTTTAGGGTTTATGGTTTATG
* * *
64210162 GGTATTGGGGTTTAAGGTTTAGG
1 GGT-TTAGGGTTTATGGTTTATG
* *
64210185 GGTTAAGGGTTAATGGTTTATG
1 GGTTTAGGGTTTATGGTTTATG
64210207 TTTTATTATT
Statistics
Matches: 67, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
20 2 0.03
21 30 0.45
22 31 0.46
23 4 0.06
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (22 bp):
GGTTTAGGGTTTATGGTTTATG
Found at i:64210182 original size:7 final size:7
Alignment explanation
Indices: 64210098--64210195 Score: 63
Period size: 7 Copynumber: 13.7 Consensus size: 7
64210088 TATGTATTAT
64210098 GGGTTTA
1 GGGTTTA
*
64210105 GGGATTA
1 GGGTTTA
*
64210112 TGGTTTA
1 GGGTTTA
*
64210119 TGGTTTA
1 GGGTTTA
*
64210126 TGGTTTA
1 GGGTTTA
*
64210133 TGGGTTAA
1 -GGGTTTA
*
64210141 AGG-TTA
1 GGGTTTA
64210147 GGGTTTA
1 GGGTTTA
* *
64210154 AGTTTTA
1 GGGTTTA
*
64210161 GGGTATTG
1 GGGT-TTA
64210169 GGGTTTA
1 GGGTTTA
*
64210176 AGGTTTA
1 GGGTTTA
*
64210183 GGGGTTAA
1 -GGGTTTA
64210191 GGGTT
1 GGGTT
64210196 AATGGTTTAT
Statistics
Matches: 70, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
6 4 0.06
7 50 0.71
8 16 0.23
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:64212992 original size:2 final size:2
Alignment explanation
Indices: 64212985--64213031 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
64212975 TGTTACTCTG
64212985 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64213027 AT AT A
1 AT AT A
64213032 ATAAGCTACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:64213437 original size:43 final size:43
Alignment explanation
Indices: 64213372--64213467 Score: 185
Period size: 43 Copynumber: 2.3 Consensus size: 43
64213362 ATTTAGCTAA
64213372 TACA-TTAAAAAAGTATTGTTCTAGTAATCATTATGCTTGTGT
1 TACAGTTAAAAAAGTATTGTTCTAGTAATCATTATGCTTGTGT
64213414 TACAGTTAAAAAAGTATTGTTCTAGTAATCATTATGCTTGTGT
1 TACAGTTAAAAAAGTATTGTTCTAGTAATCATTATGCTTGTGT
64213457 TACAGTTAAAA
1 TACAGTTAAAA
64213468 TAGTCCTTCC
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 4 0.08
43 49 0.92
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (43 bp):
TACAGTTAAAAAAGTATTGTTCTAGTAATCATTATGCTTGTGT
Found at i:64215456 original size:42 final size:42
Alignment explanation
Indices: 64215292--64215518 Score: 240
Period size: 42 Copynumber: 5.4 Consensus size: 42
64215282 AGGTCATATT
* * **
64215292 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAAGTCATGACC
1 TTTAGCGGCGTTTTTA-GAAAAGCGCCGCTAAAGGTCCTGGTC
* * * * **
64215335 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTACAGGTCATGACC
1 TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAAAGGTCCTGGTC
** * *
64215377 TTTAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTT-TTAGAAAAGCGCCGCTAAAGGTCCTGGTC
* *
64215420 TTTAGCGGCGTTTTTATAAAAGCGCCGCTAAAGGTCCTAGTC
1 TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAAAGGTCCTGGTC
* * * *
64215462 TTTA-CTGGCATTTTTATAAATGCGCCGTTAAAGGTCCTGGTC
1 TTTAGC-GGCGTTTTTAGAAAAGCGCCGCTAAAGGTCCTGGTC
64215504 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
64215519 TCTAAAAAAT
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 108 0.68
43 49 0.31
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAAAGGTCCTGGTC
Found at i:64215465 original size:85 final size:84
Alignment explanation
Indices: 64215292--64215518 Score: 235
Period size: 85 Copynumber: 2.7 Consensus size: 84
64215282 AGGTCATATT
* * ** * *
64215292 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAAGTCATGACCTTTAGCGGCGTTTGTGGAAAAG
1 TTTAGCGGCG-TTTTAGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTAGAAAAG
*
64215357 CGCCGCTACAGGTCATGACC
65 CGCCGCTAAAGGTCATGACC
* * * *
64215377 TTTAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTATAAAAG
1 TTTAGCGGCGTTT-TAGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTAGAAAAG
* *
64215442 CGCCGCTAAAGGTCCT-AGTC
65 CGCCGCTAAAGGTCATGA-CC
* * * *
64215462 TTTA-CTGGCATTTTTA-TAAATGCGCCGTTAAAGGTCCTGGTCTTTAGCGGCGTTTTT
1 TTTAGC-GGC-GTTTTAGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTT
64215519 TCTAAAAAAT
Statistics
Matches: 118, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
84 41 0.35
85 74 0.63
86 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (84 bp):
TTTAGCGGCGTTTTAGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTAGAAAAGC
GCCGCTAAAGGTCATGACC
Found at i:64222646 original size:40 final size:39
Alignment explanation
Indices: 64222481--64222664 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
64222471 AAATTGAATG
* * *
64222481 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
64222521 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
64222561 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
64222601 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
64222640 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
64222665 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:64222689 original size:80 final size:81
Alignment explanation
Indices: 64222521--64222709 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
64222511 GCTGGAAATT
* * * *
64222521 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
64222586 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
64222602 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
64222665 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
64222681 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
64222710 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:64230764 original size:40 final size:39
Alignment explanation
Indices: 64230599--64230782 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
64230589 AAATTGAATG
* * *
64230599 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
64230639 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
64230679 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
64230719 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
64230758 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
64230783 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:64230807 original size:80 final size:81
Alignment explanation
Indices: 64230639--64230827 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
64230629 GCTGGAAATT
* * * *
64230639 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
64230704 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
64230720 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
64230783 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
64230799 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
64230828 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:64234964 original size:20 final size:20
Alignment explanation
Indices: 64234939--64234980 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
64234929 ATCATGCTGT
64234939 AAACTTTAATAAAATAATAA
1 AAACTTTAATAAAATAATAA
64234959 AAACTTTAATAAAATAATAA
1 AAACTTTAATAAAATAATAA
64234979 AA
1 AA
64234981 TAAATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AAACTTTAATAAAATAATAA
Found at i:64238495 original size:27 final size:27
Alignment explanation
Indices: 64238465--64238737 Score: 156
Period size: 27 Copynumber: 9.8 Consensus size: 27
64238455 ATTATTGAAG
* *
64238465 TACCCCCGATTTACATAATTATCGTTT
1 TACCCCCGATTTACATAATTACCATTT
* * * * *
64238492 TACCCTCGATTTATAGAAGTACCGTTT
1 TACCCCCGATTTACATAATTACCATTT
** *
64238519 TACCCTTGATTTACAGAATTACCATTT
1 TACCCCCGATTTACATAATTACCATTT
* *
64238546 TACCCTCGATTTACATAATTACTA-TT
1 TACCCCCGATTTACATAATTACCATTT
*
64238572 TA-CCCCAATTTACATAATTACCATTT
1 TACCCCCGATTTACATAATTACCATTT
*
64238598 TACCCCCG-TTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCCCGATTTA----C-A--T----AATTACCATTT
* * * *
64238635 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCCCGATTTACATAATTACCATTT
** * * *
64238662 TACCGTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACATAATTACCATTT
** * * *
64238689 TACCCTTGATTTATAGAATTACTATTT
1 TACCCCCGATTTACATAATTACCATTT
* *
64238716 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACATAATTAC
64238738 AGAAATACCC
Statistics
Matches: 201, Mismatches: 31, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
25 18 0.09
26 12 0.06
27 145 0.72
30 1 0.00
31 1 0.00
33 2 0.01
34 1 0.00
37 17 0.08
38 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCCCGATTTACATAATTACCATTT
Found at i:64238531 original size:54 final size:54
Alignment explanation
Indices: 64238465--64238737 Score: 214
Period size: 54 Copynumber: 4.9 Consensus size: 54
64238455 ATTATTGAAG
* * * *
64238465 TACCCCCGATTTACATAATTATCGTTTTACCCTCGATTTATAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * *
64238519 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACATAATTA-C-TATT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGT-TT
* * *
64238572 TACCC-CAATTTACATAATTACCATTTTACCCCCG-TTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATT---A---T-----CGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * **
64238635 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * *
64238689 TACCCTTGATTTATAGAATTA-CTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTATC-GTTTTACCCTCGATTTACAGAATTAC
64238738 AGAAATACCC
Statistics
Matches: 173, Mismatches: 29, Indels: 34
0.73 0.12 0.14
Matches are distributed among these distances:
52 12 0.07
53 11 0.06
54 104 0.60
55 1 0.01
58 1 0.01
61 1 0.01
62 21 0.12
63 9 0.05
64 13 0.08
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:64238610 original size:62 final size:64
Alignment explanation
Indices: 64238544--64238665 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 64
64238534 GAATTACCAT
* * *
64238544 TTTACCCTCGATTTACATAATTA-C-TATTTACCC-CAATTTACATAATTACCATTTTACCCCCG
1 TTTACCCTCGACTTACAGAATTACCGT-TTTACCCTCAATTTACAAAATTACCATTTTACCCCCG
* * *
64238606 TTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACC
1 TTTACCCTCGACTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCATTTTACC
64238666 GTCGATTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
62 21 0.41
63 8 0.16
64 22 0.43
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (64 bp):
TTTACCCTCGACTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCATTTTACCCCCG
Found at i:64238738 original size:116 final size:115
Alignment explanation
Indices: 64238506--64238746 Score: 270
Period size: 116 Copynumber: 2.1 Consensus size: 115
64238496 CTCGATTTAT
* * * *
64238506 AGAAGTACCGTTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACATAATTACTAT
1 AGAAATACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTAT
* ** *
64238571 TTACCCCAATTTACATAATTACCATTTTACCCCCGTTTACCCTCGACTTAC
66 TTACCCCAATTTACAGAATTACCATTTTACCCCCGTTTA-CCTAAAATTAC
* * * * *
64238622 AGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTAT
1 AGAAATACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTA-
** * * *
64238687 TTTACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTA-C-AAAATTAC
65 TTTACCC-CAATTTACAGAATTACCATTTTACCCCCG-TTTACCTAAAATTAC
64238738 AGAAATACC
1 AGAAATACC
64238747 CTCAATTTGT
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
116 69 0.66
117 8 0.08
118 23 0.22
119 4 0.04
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (115 bp):
AGAAATACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTAT
TTACCCCAATTTACAGAATTACCATTTTACCCCCGTTTACCTAAAATTAC
Found at i:64238746 original size:27 final size:27
Alignment explanation
Indices: 64238716--64238975 Score: 149
Period size: 27 Copynumber: 9.6 Consensus size: 27
64238706 ATTACTATTT
**
64238716 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTCGATTTGTAAAATTACAGAAA
*
64238743 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTCGATTTGTAAAATTA-CAGAAA
*
64238770 TACCC-CTAATTTGTAAAATTACCA-AAA
1 TACCCTC-GATTTGTAAAATTA-CAGAAA
*
64238797 TACCC-CTAGTTTGTAAAATTACCA-AAA
1 TACCCTCGA-TTTGTAAAATTA-CAGAAA
* * *
64238824 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACAGAAA
*
64238851 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTCGATTTGTAAAATTA-CAGAAA
** *
64238878 TACCC-CTGATTTACAAAGTTACAGAAA
1 TACCCTC-GATTTGTAAAATTACAGAAA
* * * * *
64238905 TGCCCTTGGCTTTCTAAAAATTATAGAAA
1 TACCC-TCGATTTGT-AAAATTACAGAAA
* * * ** *
64238934 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTGTAAAATTACAGAAA
* *
64238961 TACCCTTGGTTTGTA
1 TACCCTCGATTTGTA
64238976 GATTTACCAA
Statistics
Matches: 186, Mismatches: 34, Indels: 26
0.76 0.14 0.11
Matches are distributed among these distances:
26 8 0.04
27 151 0.81
28 13 0.07
29 14 0.08
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACAGAAA
Found at i:64238763 original size:54 final size:54
Alignment explanation
Indices: 64238718--64238910 Score: 237
Period size: 54 Copynumber: 3.6 Consensus size: 54
64238708 TACTATTTTA
64238718 CCCTCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATAC
* ** *
64238773 CCCTAATTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAAAATTACCAAAATAC
1 CCCTGATTTACAAAATTA-CAGAAATACCCTC-AATTTGTAAAATTACCAAAATAC
* * *** *
64238827 CACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATAC
* *
64238881 CCCTGATTTACAAAGTTACAGAAATGCCCT
1 CCCTGATTTACAAAATTACAGAAATACCCT
64238911 TGGCTTTCTA
Statistics
Matches: 116, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.02
54 107 0.92
55 7 0.06
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (54 bp):
CCCTGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATAC
Found at i:64238763 original size:81 final size:81
Alignment explanation
Indices: 64238606--64238764 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 81
64238596 TTTACCCCCG
* *** * *
64238606 TTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCGA
1 TTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCAA
*
64238671 TTTATAGAATTACTAT
66 TTTATAAAATTACTAT
* * * *
64238687 TTTACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTA-CAGAAATACCCTCA
1 TTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATC-GAAATACCCTCA
*
64238751 ATTTGTAAAATTAC
65 ATTTATAAAATTAC
64238765 CAAAATACCC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.02
81 64 0.98
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
TTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCAA
TTTATAAAATTACTAT
Found at i:64238790 original size:81 final size:79
Alignment explanation
Indices: 64238716--64238910 Score: 232
Period size: 81 Copynumber: 2.4 Consensus size: 79
64238706 ATTACTATTT
64238716 TACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCC-CTAAT
1 TACCC-CGATTTACAAAATTACAGAAATACCCT-AATTTGTAAAATTACCAAAATACCCTC-AAT
64238780 TTGTAAAATTACCAAAA
63 TTGTAAAATTACCAAAA
* ** ** * *
64238797 TACCCCTAGTTTGTAAAATTACCA-AAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TACCCCGA-TTTACAAAATTA-CAGAAATACC-CTAATTTGTAAAATTACCAAAATACCCTCAAT
64238861 TTGTAAAATTACCAAAA
63 TTGTAAAATTACCAAAA
* *
64238878 TACCCCTGATTTACAAAGTTACAGAAATGCCCT
1 TACCCC-GATTTACAAAATTACAGAAATACCCT
64238911 TGGCTTTCTA
Statistics
Matches: 96, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
80 6 0.06
81 84 0.88
82 6 0.06
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (79 bp):
TACCCCGATTTACAAAATTACAGAAATACCCTAATTTGTAAAATTACCAAAATACCCTCAATTTG
TAAAATTACCAAAA
Found at i:64239055 original size:27 final size:27
Alignment explanation
Indices: 64239025--64239116 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
64239015 TACCCCTATT
*
64239025 GGGTAAAAAGACCGTAAAGCCCCTGTA
1 GGGTAAAATGACCGTAAAGCCCCTGTA
*
64239052 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 GGGTAAAATGACCGTAAAGCCCCTGTA
* *
64239079 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 GGGTAAAATGACCGTAA-AGCCCCTGTA
*
64239106 TGGTAAAATGA
1 GGGTAAAATGA
64239117 TGAATATGCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:64240794 original size:71 final size:71
Alignment explanation
Indices: 64240708--64240871 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64240698 CGATTTGTCT
64240708 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64240773 CTTTCA
66 CTTTCA
64240779 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64240844 CTTTCA
66 CTTTCA
64240850 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
64240872 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:64240909 original size:71 final size:70
Alignment explanation
Indices: 64240708--64240905 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
64240698 CGATTTGTCT
* * * *
64240708 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
64240773 CTTTCA
65 CTTTCA
* * * *
64240779 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
64240844 CTTTCA
65 CTTTCA
* *
64240850 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
64240906 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:64248373 original size:71 final size:71
Alignment explanation
Indices: 64248289--64248452 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64248279 CGATTTGTCT
64248289 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64248354 CTTTCA
66 CTTTCA
64248360 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64248425 CTTTCA
66 CTTTCA
64248431 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
64248453 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:64248490 original size:71 final size:70
Alignment explanation
Indices: 64248289--64248486 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
64248279 CGATTTGTCT
* * * *
64248289 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
64248354 CTTTCA
65 CTTTCA
* * * *
64248360 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
64248425 CTTTCA
65 CTTTCA
* *
64248431 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
64248487 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:64250684 original size:9 final size:9
Alignment explanation
Indices: 64250672--64250748 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
64250662 TTTGATAAAC
64250672 ATGATATGT
1 ATGATATGT
*
64250681 ATGATATGCAC
1 ATGATATG--T
64250692 ATGATATGT
1 ATGATATGT
* *
64250701 ATGATGTGCAC
1 ATGATATG--T
*
64250712 ATGACATGT
1 ATGATATGT
*
64250721 ATGATATGCAC
1 ATGATATG--T
64250732 ATGATATGT
1 ATGATATGT
64250741 ATGATATG
1 ATGATATG
64250749 CACACGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:64250697 original size:11 final size:11
Alignment explanation
Indices: 64250681--64250752 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
64250671 CATGATATGT
64250681 ATGATATGCAC
1 ATGATATGCAC
*
64250692 ATGATATG--T
1 ATGATATGCAC
*
64250701 ATGATGTGCAC
1 ATGATATGCAC
* *
64250712 ATGACATG--T
1 ATGATATGCAC
64250721 ATGATATGCAC
1 ATGATATGCAC
*
64250732 ATGATATG--T
1 ATGATATGCAC
64250741 ATGATATGCAC
1 ATGATATGCAC
64250752 A
1 A
64250753 CGAGATGTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:64250760 original size:20 final size:20
Alignment explanation
Indices: 64250670--64250752 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
64250660 ATTTTGATAA
64250670 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
64250690 ACATGATATGTATGATGTGC
1 ACATGATATGTATGATATGC
*
64250710 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
64250730 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
64250750 ACA
1 ACA
64250753 CGAGATGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:64250862 original size:24 final size:24
Alignment explanation
Indices: 64250806--64250995 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
64250796 GAGGAAGTGA
64250806 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
64250829 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
64250853 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
64250877 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
64250901 AAAAAGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
64250924 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
64250948 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
64250972 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
64250996 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
23 42 0.28
24 98 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:64250875 original size:47 final size:47
Alignment explanation
Indices: 64250806--64250974 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
64250796 GAGGAAGTGA
64250806 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
64250853 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* * *
64250901 AAAAAGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
64250948 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
64250975 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
47 69 0.61
48 44 0.39
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:64250929 original size:71 final size:71
Alignment explanation
Indices: 64250805--64250995 Score: 269
Period size: 71 Copynumber: 2.7 Consensus size: 71
64250795 GGAGGAAGTG
* * *
64250805 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAAGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
64250870 AGTTAT
66 AGTTAT
* *
64250876 CAAAAGGGCTTATGCCCCAGTTATCAAAAAGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAAGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
64250940 CAGTTAT
65 CAGTTAT
* *
64250947 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAA-AGGCTTACGCC-CCAGTTAT
64250996 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
71 75 0.69
72 33 0.31
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAAGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:64251252 original size:31 final size:31
Alignment explanation
Indices: 64251189--64251252 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
64251179 CGTTTACAGT
* **
64251189 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGACCCAGTAATATGAAAGATGA
**
64251220 AAAGGCTTCGACCCAGTGTTATGAAAGATGA
1 AAAGGCTTCGACCCAGTAATATGAAAGATGA
64251251 AA
1 AA
64251253 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAAGATGA
Found at i:64255577 original size:26 final size:26
Alignment explanation
Indices: 64255548--64255629 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
64255538 TGATACAAAT
64255548 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
64255574 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64255600 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64255626 TGAT
1 TGAT
64255630 TGGAATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64262584 original size:26 final size:26
Alignment explanation
Indices: 64262555--64262636 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
64262545 TGATACAAAT
64262555 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
64262581 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64262607 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64262633 TGAT
1 TGAT
64262637 TGGAATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64264142 original size:26 final size:26
Alignment explanation
Indices: 64264112--64264164 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
64264102 TTTATAGTTT
*
64264112 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
64264138 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
64264164 T
1 T
64264165 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:64270275 original size:20 final size:18
Alignment explanation
Indices: 64270250--64270286 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
64270240 ACCTAACACA
64270250 AATTAAATTTAAGCCATATT
1 AATTAAA-TTAAG-CATATT
64270270 AATTAAATTAAGCATAT
1 AATTAAATTAAGCATAT
64270287 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAGCATATT
Found at i:64273534 original size:18 final size:19
Alignment explanation
Indices: 64273499--64273543 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
64273489 ATGAAACATA
64273499 ATAGA-AAAGAGAAAATTG
1 ATAGAGAAAGAGAAAATTG
*
64273517 ATAGAGAAAGAG-AGATTG
1 ATAGAGAAAGAGAAAATTG
*
64273535 AGAGAGAAA
1 ATAGAGAAA
64273544 AAATCAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (19 bp):
ATAGAGAAAGAGAAAATTG
Found at i:64277333 original size:131 final size:129
Alignment explanation
Indices: 64277089--64277421 Score: 438
Period size: 131 Copynumber: 2.6 Consensus size: 129
64277079 TAATTATCCA
** *
64277089 TTTAAAAATTCTTTAAAACAAAGGCGATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAAC-AAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
** * * *
64277154 ATGCTGGGTTGCAATTTCCTTTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
65 ATGCTGGGTTGCAATTTCCCGTTTGTCCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
64277219 CTTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAC
1 -TTTAAAAATTCTTTAAAAC-AAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAC
*
64277284 CATGCTGGGTTGCAATTTCCCGTTTGTCCAAAATAATCAAATGTCCCTTTAGAATTTCACTCATG
64 CATGCTGGGTTGCAATTTCCCGTTTGTCCAAAATAATCAAATATCCCTTTAGAATTTCACTCATG
64277349 T
129 T
** * * * * * * *
64277350 TTTCTAAATTC--TAAAACAA-GACAATGTACAATGTCTAGAAATTCGAGGAATCGTGCCCTACT
1 TTTAAAAATTCTTTAAAACAAGGA-AATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
*
64277412 GTGCTGGGTT
65 ATGCTGGGTT
64277422 TCGATTTTTC
Statistics
Matches: 181, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
126 2 0.01
127 44 0.24
128 6 0.03
130 9 0.05
131 120 0.66
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (129 bp):
TTTAAAAATTCTTTAAAACAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACCA
TGCTGGGTTGCAATTTCCCGTTTGTCCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
Found at i:64280461 original size:122 final size:122
Alignment explanation
Indices: 64280244--64280487 Score: 425
Period size: 122 Copynumber: 2.0 Consensus size: 122
64280234 ATCTCTGGCA
* *
64280244 CTTATCACTATTAGTGTCTTTGCTAGAAATGCTCATTATCAGGCATGTATCTTAGCTACTTGTTT
1 CTTATCACTATTAGTGTCTTTGATAGAAATGCTCATTACCAGGCATGTATCTTAGCTACTTGTTT
64280309 ACTGATGTACATGTAAGATGCTATAGTTAATGTATGCGTTTCCTTACTGCAATGTAT
66 ACTGATGTACATGTAAGATGCTATAGTTAATGTATGCGTTTCCTTACTGCAATGTAT
* *
64280366 CTTATCACTATTAGTGTCTTTGATAGAATTGCTCATTACCAGGCATGTATCTTAGCTGCTTGTTT
1 CTTATCACTATTAGTGTCTTTGATAGAAATGCTCATTACCAGGCATGTATCTTAGCTACTTGTTT
* * *
64280431 ACTGATGTACATGTAAGATGCTTTGGTTAATGTATGTGTTTCCTTACTGCAATGTAT
66 ACTGATGTACATGTAAGATGCTATAGTTAATGTATGCGTTTCCTTACTGCAATGTAT
64280488 TAATATCCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
122 115 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (122 bp):
CTTATCACTATTAGTGTCTTTGATAGAAATGCTCATTACCAGGCATGTATCTTAGCTACTTGTTT
ACTGATGTACATGTAAGATGCTATAGTTAATGTATGCGTTTCCTTACTGCAATGTAT
Found at i:64283539 original size:2 final size:2
Alignment explanation
Indices: 64283534--64283571 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
64283524 TTTAAGCTTT
64283534 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64283572 ACCCTTTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64283784 original size:9 final size:9
Alignment explanation
Indices: 64283770--64283920 Score: 60
Period size: 9 Copynumber: 16.7 Consensus size: 9
64283760 TATTTTTTTC
64283770 ATAAAAATA
1 ATAAAAATA
64283779 ATAAAAATA
1 ATAAAAATA
**
64283788 GA-AAAAAGC
1 -ATAAAAATA
*
64283797 ATAAAAATT
1 ATAAAAATA
*
64283806 TTAAAAAT-
1 ATAAAAATA
*
64283814 ATAAAATTA
1 ATAAAAATA
* *
64283823 ATAAAACTT
1 ATAAAAATA
* *
64283832 ATTAAAATT
1 ATAAAAATA
*
64283841 ATAAAAACTT
1 ATAAAAA-TA
* *
64283851 ATAAATATT
1 ATAAAAATA
64283860 ATAAAATATA
1 ATAAAA-ATA
*
64283870 A-AAAATCTA
1 ATAAAA-ATA
**
64283879 ATTAAATCTA
1 A-TAAAAATA
*
64283889 ATAAATTATA
1 ATAAA-AATA
64283899 A-AAAAAT-
1 ATAAAAATA
*
64283906 ATAAAATTA
1 ATAAAAATA
64283915 ATAAAA
1 ATAAAA
64283921 CTTAATTAAA
Statistics
Matches: 112, Mismatches: 20, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
7 1 0.01
8 14 0.12
9 74 0.66
10 20 0.18
11 3 0.03
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (9 bp):
ATAAAAATA
Found at i:64283839 original size:19 final size:17
Alignment explanation
Indices: 64283800--64283947 Score: 65
Period size: 19 Copynumber: 8.2 Consensus size: 17
64283790 AAAAAGCATA
*
64283800 AAAATT-TTAAAAATAT
1 AAAATTATTAAAATTAT
*
64283816 AAAATTAATAAAACTTATT
1 AAAATTATTAAAA-TTA-T
*
64283835 AAAATTATAAAAACTTAT
1 AAAATTATTAAAA-TTAT
*
64283853 AAATATTA-TAAAATATAA
1 AAA-ATTATTAAAAT-TAT
64283871 AAAATCTAATT-AAATCTA-
1 AAAAT-T-ATTAAAAT-TAT
* *
64283889 ATAAATTATAAAAAAATAT
1 A-AAATTAT-TAAAATTAT
*
64283908 AAAATTAATAAAACTTAATT
1 AAAATTATTAAAA-TT-A-T
64283928 AAAA-TATTTAAAATTA-
1 AAAATTA-TTAAAATTAT
64283944 AAAA
1 AAAA
64283948 AAAACATATT
Statistics
Matches: 103, Mismatches: 13, Indels: 32
0.70 0.09 0.22
Matches are distributed among these distances:
16 10 0.10
17 14 0.14
18 28 0.27
19 40 0.39
20 11 0.11
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATTAAAATTAT
Found at i:64283852 original size:10 final size:9
Alignment explanation
Indices: 64283770--64283873 Score: 74
Period size: 9 Copynumber: 11.8 Consensus size: 9
64283760 TATTTTTTTC
*
64283770 ATAAAAATA
1 ATAAAAATT
64283779 ATAAAAA-T
1 ATAAAAATT
* **
64283787 AGAAAAAAGC
1 A-TAAAAATT
64283797 ATAAAAATT
1 ATAAAAATT
*
64283806 TTAAAAA-T
1 ATAAAAATT
64283814 AT-AAAATT
1 ATAAAAATT
*
64283822 AATAAAACTT
1 -ATAAAAATT
*
64283832 ATTAAAATT
1 ATAAAAATT
64283841 ATAAAAACTT
1 ATAAAAA-TT
*
64283851 ATAAATATT
1 ATAAAAATT
64283860 AT-AAAA-T
1 ATAAAAATT
64283867 ATAAAAA
1 ATAAAAA
64283874 ATCTAATTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 15
0.72 0.14 0.15
Matches are distributed among these distances:
7 7 0.09
8 11 0.15
9 42 0.57
10 14 0.19
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
ATAAAAATT
Found at i:64283925 original size:10 final size:9
Alignment explanation
Indices: 64283814--64283932 Score: 70
Period size: 9 Copynumber: 12.8 Consensus size: 9
64283804 TTTTAAAAAT
64283814 ATAAAATTA
1 ATAAAATTA
64283823 ATAAAACTTA
1 ATAAAA-TTA
*
64283833 TTAAAATT-
1 ATAAAATTA
64283841 ATAAAAACTT-
1 AT-AAAA-TTA
64283851 ATAAATATT-
1 ATAAA-ATTA
64283860 ATAAAATATA
1 ATAAAAT-TA
64283870 A-AAAATCTA
1 ATAAAAT-TA
*
64283879 ATTAAATCTA
1 ATAAAAT-TA
64283889 AT-AAATT-
1 ATAAAATTA
**
64283896 ATAAAAAAA
1 ATAAAATTA
64283905 TATAAAATTA
1 -ATAAAATTA
64283915 ATAAAACTTA
1 ATAAAA-TTA
64283925 ATTAAAAT
1 A-TAAAAT
64283933 ATTTAAAATT
Statistics
Matches: 90, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
7 2 0.02
8 7 0.08
9 41 0.46
10 35 0.39
11 5 0.06
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAAAATTA
Found at i:64284240 original size:16 final size:15
Alignment explanation
Indices: 64284221--64284264 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
64284211 AAACAATTAG
*
64284221 TTAATTAATTAAAGTT
1 TTAATTAACT-AAGTT
64284237 TTAATTAACTAAGTT
1 TTAATTAACTAAGTT
*
64284252 TAAATTTAACTAA
1 TTAA-TTAACTAA
64284265 TTGTATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (15 bp):
TTAATTAACTAAGTT
Found at i:64289024 original size:79 final size:78
Alignment explanation
Indices: 64288915--64289128 Score: 250
Period size: 79 Copynumber: 2.7 Consensus size: 78
64288905 GTATGCAGTG
* * *
64288915 CTTGGAGACAACTTGCATTTCACCAGTTCGCAGCTCCTTCTCAGTTCGCAAGCTCTTTGTTTGTA
1 CTTGGAGACTATTTGCA-TTCACCAGTTCGCAGCTCCATCTCAGTTCGCAAGCTCTTTGTTTGTA
* * *
64288980 GCTCGCATGCAGCC
65 CCTCACATGCAACC
* *
64288994 CTTGGAGACTATTTGCATTGCACCAGTTCGCAGCTCCATCTCAGCTT-ACAAGCTTTTTGTTTGT
1 CTTGGAGACTATTTGCATT-CACCAGTTCGCAGCTCCATCTCAG-TTCGCAAGCTCTTTGTTTGT
64289058 ACCTCACATGCAACC
64 ACCTCACATGCAACC
* * ** ** *
64289073 TTTGGAGACTGTTCACACTTCATTAGTTCGCAGCTCCATCCCAGTTCGCAAGCTCT
1 CTTGGAGACTATTTGCA-TTCACCAGTTCGCAGCTCCATCTCAGTTCGCAAGCTCT
64289129 CTTCTTGCAG
Statistics
Matches: 114, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 4 0.04
79 106 0.93
80 4 0.04
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (78 bp):
CTTGGAGACTATTTGCATTCACCAGTTCGCAGCTCCATCTCAGTTCGCAAGCTCTTTGTTTGTAC
CTCACATGCAACC
Found at i:64291365 original size:23 final size:23
Alignment explanation
Indices: 64291339--64291384 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
64291329 TATATTGAGA
64291339 TACAAACATGTAAACATAATCTG
1 TACAAACATGTAAACATAATCTG
64291362 TACAAACATGTAAACATAATCTG
1 TACAAACATGTAAACATAATCTG
64291385 CAAGCCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (23 bp):
TACAAACATGTAAACATAATCTG
Found at i:64295422 original size:20 final size:20
Alignment explanation
Indices: 64295381--64295432 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
64295371 AATACTTATC
* *
64295381 TTAATATT-ATTTTATTAAT
1 TTAATATTAAATTGATTAAT
* *
64295400 TTAATGTTAAATTGATTATT
1 TTAATATTAAATTGATTAAT
64295420 TTAATATTAAATT
1 TTAATATTAAATT
64295433 TAATCTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTAATATTAAATTGATTAAT
Found at i:64295485 original size:69 final size:68
Alignment explanation
Indices: 64295351--64295486 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 68
64295341 TTTTAATAGA
* * * * * * *
64295351 TTTAGTATTAAATTAAATTTAATACTTATCTTAATATTATTTTATTAATTTAATGTTAAATTGAT
1 TTTAATATTAAATTAAATCTAATACTTATCTCAATAGTATTATATTAATTTAATATTAAAATGAT
64295416 TAT
66 TAT
* * *
64295419 TTTAATATTAAATTTAATCTAATATTTATCTCGATAAGTATTATATTAATTTAATATTAAAATGA
1 TTTAATATTAAATTAAATCTAATACTTATCTCAAT-AGTATTATATTAATTTAATATTAAAATGA
64295484 TTA
65 TTA
64295487 AGTTTAACCA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
68 29 0.51
69 28 0.49
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (68 bp):
TTTAATATTAAATTAAATCTAATACTTATCTCAATAGTATTATATTAATTTAATATTAAAATGAT
TAT
Found at i:64300327 original size:40 final size:40
Alignment explanation
Indices: 64300272--64300481 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64300262 AACATTGGAA
64300272 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64300312 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64300352 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64300392 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64300431 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64300472 CTATATCCGG
1 ATATATCCGG
64300482 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64308461 original size:40 final size:40
Alignment explanation
Indices: 64308406--64308615 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64308396 AACATTGGAA
64308406 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64308446 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
64308486 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
64308526 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
64308565 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
64308606 CTATATCCGG
1 ATATATCCGG
64308616 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:64311754 original size:40 final size:40
Alignment explanation
Indices: 64311699--64311879 Score: 292
Period size: 40 Copynumber: 4.5 Consensus size: 40
64311689 GATGATAACT
* * *
64311699 GGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCC
64311739 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
64311779 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
64311819 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
64311859 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
64311880 CGAGCAAGTA
Statistics
Matches: 133, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 132 0.99
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:64311895 original size:40 final size:40
Alignment explanation
Indices: 64311699--64311900 Score: 291
Period size: 40 Copynumber: 5.0 Consensus size: 40
64311689 GATGATAACT
* * *
64311699 GGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-TATCC
*
64311739 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
64311779 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
* *
64311819 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
* * *
64311859 GGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCC
64311899 GG
1 GG
64311901 TTAAATCCCA
Statistics
Matches: 150, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
39 3 0.02
40 147 0.98
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
Found at i:64317020 original size:46 final size:46
Alignment explanation
Indices: 64316884--64317020 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
64316874 TATATAAACA
* * * ** *
64316884 CATCTCATACATATCTCACATTAGCCATTTAGCTTTACCATATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
64316930 CATCTCATACACGTTTCGTATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
**
64316976 CATCTCATACACATTTCGCATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
64317021 ATACACTTCC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:64317065 original size:47 final size:47
Alignment explanation
Indices: 64317034--64317373 Score: 581
Period size: 47 Copynumber: 7.2 Consensus size: 47
64317024 CACTTCCACG
** *
64317034 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTTACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
64317081 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
64317128 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
64317175 TTCATCACATTGGCCATTCTGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
64317222 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
64317269 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
64317316 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
64317363 TTCATCACATT
1 TTCATCACATT
64317374 AAAATCCTAA
Statistics
Matches: 275, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 275 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:64320574 original size:18 final size:18
Alignment explanation
Indices: 64320548--64320582 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64320538 GACTTATGCA
*
64320548 CATATAAATATATATACT
1 CATACAAATATATATACT
64320566 CATACAAATATATATAC
1 CATACAAATATATATAC
64320583 ATATCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
CATACAAATATATATACT
Found at i:64320585 original size:16 final size:16
Alignment explanation
Indices: 64320547--64320585 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
64320537 TGACTTATGC
*
64320547 ACATATAAATATATAT
1 ACATACAAATATATAT
64320563 ACTCATACAAATATATAT
1 A--CATACAAATATATAT
64320581 ACATA
1 ACATA
64320586 TCATAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.25
18 15 0.75
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (16 bp):
ACATACAAATATATAT
Found at i:64328605 original size:27 final size:27
Alignment explanation
Indices: 64328575--64328757 Score: 231
Period size: 27 Copynumber: 6.8 Consensus size: 27
64328565 GCATACCTGA
64328575 ACCCTTATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGATGATTTT
**
64328602 ACCCTTATGTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGATGATTTT
* * * *
64328629 GCCCTCACGTGATAAAATGATGATTAT
1 ACCCTTATGTGATAAAATGATGATTTT
*
64328656 ACCCATATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGATGATTTT
* * * *
64328683 TCCCTTATGTTATAAGATGACGATTTT
1 ACCCTTATGTGATAAAATGATGATTTT
* *
64328710 TCCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGATGATTTT
* *
64328737 GCCCTTATATGATAAAATGAT
1 ACCCTTATGTGATAAAATGAT
64328758 CGAAATACCC
Statistics
Matches: 133, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGATGATTTT
Found at i:64328665 original size:54 final size:54
Alignment explanation
Indices: 64328576--64328757 Score: 256
Period size: 54 Copynumber: 3.4 Consensus size: 54
64328566 CATACCTGAA
*
64328576 CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATGACAATTTTG
1 CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATGACGATTTTG
* * * * * *
64328630 CCCTCACGTGATAAAATGATGATTATACCCATATGTGATAAAATGATGATTTTT
1 CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATGACGATTTTG
* * * *
64328684 CCCTTATGTTATAAGATGACGATTTTTCCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATGACGATTTTG
*
64328738 CCCTTATATGATAAAATGAT
1 CCCTTATGTGATAAAATGAT
64328758 CGAAATACCC
Statistics
Matches: 107, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 107 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (54 bp):
CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATGACGATTTTG
Found at i:64328722 original size:81 final size:81
Alignment explanation
Indices: 64328575--64328757 Score: 258
Period size: 81 Copynumber: 2.3 Consensus size: 81
64328565 GCATACCTGA
64328575 ACCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATGACAATTTTGCCCTCACGTG
1 ACCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATGACAATTTTGCCCTCACGTG
*
64328640 ATAAAATGATGATTAT
66 ATAAAATGACGATTAT
* * * * * * * *
64328656 ACCCATATGTGATAAAATGATGATTTTTCCCTTATGTTATAAGATGACGATTTTTCCCTTATGTG
1 ACCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATGACAATTTTGCCCTCACGTG
*
64328721 ATAAAATGACGATTTT
66 ATAAAATGACGATTAT
* *
64328737 GCCCTTATATGATAAAATGAT
1 ACCCTTATGTGATAAAATGAT
64328758 CGAAATACCC
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 89 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (81 bp):
ACCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAATGACAATTTTGCCCTCACGTG
ATAAAATGACGATTAT
Found at i:64328888 original size:23 final size:23
Alignment explanation
Indices: 64328845--64328894 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
64328835 CTGTATTTGA
64328845 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
64328868 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
64328891 GCAT
1 GCAT
64328895 TGCATGGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:64333297 original size:13 final size:13
Alignment explanation
Indices: 64333279--64333303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64333269 ATAAGAGTAT
64333279 GAAAAAAAAAAGG
1 GAAAAAAAAAAGG
64333292 GAAAAAAAAAAG
1 GAAAAAAAAAAG
64333304 TGTTCATCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAGG
Found at i:64334761 original size:24 final size:24
Alignment explanation
Indices: 64334517--64334759 Score: 432
Period size: 24 Copynumber: 10.1 Consensus size: 24
64334507 GCAAAGACCA
64334517 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64334541 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
64334565 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
64334589 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64334613 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
64334637 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
64334661 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
64334685 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64334709 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
64334733 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
64334757 TAT
1 TAT
64334760 AGTCACATTC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:64342772 original size:24 final size:24
Alignment explanation
Indices: 64342528--64342770 Score: 432
Period size: 24 Copynumber: 10.1 Consensus size: 24
64342518 GCAAAGACCA
64342528 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64342552 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
64342576 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
64342600 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64342624 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
64342648 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
64342672 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
64342696 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
64342720 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
64342744 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
64342768 TAT
1 TAT
64342771 AGTCACATTC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:64347094 original size:2 final size:2
Alignment explanation
Indices: 64347089--64347120 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
64347079 TTTTGAATTT
*
64347089 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64347121 AACTACTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:64348717 original size:20 final size:20
Alignment explanation
Indices: 64348692--64348749 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
64348682 TGAGATGGAA
*
64348692 TTGAGCTGGATGTGATCTTG
1 TTGAGCTGGATGTGAGCTTG
**
64348712 TTGAGCTGGAACTGAGCTTG
1 TTGAGCTGGATGTGAGCTTG
* *
64348732 CTGAGCTGGTTGTGAGCT
1 TTGAGCTGGATGTGAGCT
64348750 GGACGAGCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.16, C:0.14, G:0.36, T:0.34
Consensus pattern (20 bp):
TTGAGCTGGATGTGAGCTTG
Found at i:64350627 original size:18 final size:18
Alignment explanation
Indices: 64350601--64350635 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64350591 GACTTATGCA
*
64350601 CATATAAATATATATACT
1 CATACAAATATATATACT
64350619 CATACAAATATATATAC
1 CATACAAATATATATAC
64350636 ATATGATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
CATACAAATATATATACT
Found at i:64350638 original size:16 final size:16
Alignment explanation
Indices: 64350600--64350638 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
64350590 TGACTTATGC
*
64350600 ACATATAAATATATAT
1 ACATACAAATATATAT
64350616 ACTCATACAAATATATAT
1 A--CATACAAATATATAT
64350634 ACATA
1 ACATA
64350639 TGATAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.25
18 15 0.75
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (16 bp):
ACATACAAATATATAT
Found at i:64353422 original size:29 final size:29
Alignment explanation
Indices: 64353380--64353437 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
64353370 TTAGACAAGG
64353380 TAAGCATTGCAACCCTTTCTAACATATTT
1 TAAGCATTGCAACCCTTTCTAACATATTT
64353409 TAAGCATTGCAACCCTTTCTAACATATTT
1 TAAGCATTGCAACCCTTTCTAACATATTT
64353438 CAGTCCTAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (29 bp):
TAAGCATTGCAACCCTTTCTAACATATTT
Found at i:64355130 original size:18 final size:19
Alignment explanation
Indices: 64355109--64355158 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
64355099 CTGCAAGGAC
* *
64355109 AAGGACAAAGG-GAAGGCT
1 AAGGACAAAGGCAAAGCCT
*
64355127 AAGG-CTAAGGCAAAGCCT
1 AAGGACAAAGGCAAAGCCT
*
64355145 AAGGACAATGGCAA
1 AAGGACAAAGGCAA
64355159 CACCAAGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 5 0.20
18 13 0.52
19 7 0.28
ACGTcount: A:0.44, C:0.16, G:0.32, T:0.08
Consensus pattern (19 bp):
AAGGACAAAGGCAAAGCCT
Found at i:64357238 original size:27 final size:26
Alignment explanation
Indices: 64357207--64357280 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 26
64357197 TGGATAAGTT
64357207 GTAGAATTATCGAAATACCCCTATAGG
1 GTAGAATTA-CGAAATACCCCTATAGG
*
64357234 TTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTAC-GAAATACCCCTATAGG
*
64357261 GTAGAATTACCGAGATACCC
1 GTAGAATTA-CGAAATACCC
64357281 TTGTGTGGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (26 bp):
GTAGAATTACGAAATACCCCTATAGG
Found at i:64358959 original size:30 final size:29
Alignment explanation
Indices: 64358916--64358979 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
64358906 CAAGTAACCG
64358916 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
64358945 AAGCTAGTTTAAATCGTACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
64358975 AAGCT
1 AAGCT
64358980 TCCGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Done.