Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 233 of 373
Found at i:79279551 original size:131 final size:131
Alignment explanation
Indices: 79279304--79279659 Score: 333
Period size: 131 Copynumber: 2.7 Consensus size: 131
79279294 CGAAGGGATC
* * *
79279304 TTCGATTATTTTGAGCAAAAGAGAAAGCACAACCCAGCGCGATAGGGC-TCGATTCTCAAATCAC
1 TTCGATTATTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCAT-GATTCTCAAATCAC
* * *
79279368 CAAACATCGAATATCGCCTTCGTTTTGCAAGGTTTTTAATAAACATGAGTGAAAACCTAAAGGAA
65 CAAACACCGAATATCGCCTTCGTTTTGAAAGGTTTTTAATAAACACGAGTGAAAACCTAAAGGAA
79279433 AA
130 AA
* * * * ****
79279435 TTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCATGGTAGGGCATGATTCTCGAATTGTT
1 TTCGATTATTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCAAATCACC
* * * * ** *
79279500 AAACACCGAGTATTGCCTTCGTTTT-AAAGGATTTTTAGA-AGACACGGGTGAAATTCTAAAGGG
66 AAACACCGAATATCGCCTTCGTTTTGAAAGG-TTTTTA-ATAAACACGAGTGAAAACCTAAAGGA
**
79279563 ACC
129 AAA
* * ** * * * *
79279566 TTCGATAACTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTC-CATGAATTA
1 TTCGATTATTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCA--AATCA
** *
79279630 CCAAGTATCGAATATCGCCTTCGTTTTGAA
64 CCAAACACCGAATATCGCCTTCGTTTTGAA
79279660 GAATTTTTGA
Statistics
Matches: 178, Mismatches: 41, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
130 5 0.03
131 145 0.81
132 26 0.15
133 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (131 bp):
TTCGATTATTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCAAATCACC
AAACACCGAATATCGCCTTCGTTTTGAAAGGTTTTTAATAAACACGAGTGAAAACCTAAAGGAAA
A
Found at i:79280962 original size:11 final size:11
Alignment explanation
Indices: 79280946--79280972 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
79280936 ATATATATAC
79280946 ATTTAACATAA
1 ATTTAACATAA
79280957 ATTTAACATAA
1 ATTTAACATAA
79280968 ATTTA
1 ATTTA
79280973 GTCTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTTAACATAA
Found at i:79282251 original size:44 final size:44
Alignment explanation
Indices: 79282202--79282486 Score: 437
Period size: 44 Copynumber: 6.5 Consensus size: 44
79282192 CTTTATCAAC
* **
79282202 ACAGAGATGCCAAATCTGCTATCTTCGATCTG-TCCTCTGATAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCT-CTCCGCCAAT
* *
79282246 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCTCCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAT
79282290 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAT
* *
79282334 ACAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAGT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAT
* *
79282378 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCCGCCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAT
* * *
79282422 ACAGAGATGCCAAATCTTCTATCTTCGATCTGCTTTCTGCCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAT
*
79282466 ACAGAGACGCCAAATCTGCTA
1 ACAGAGATGCCAAATCTGCTA
79282487 GATTCGCCAA
Statistics
Matches: 221, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
44 220 1.00
45 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (44 bp):
ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAT
Found at i:79289679 original size:40 final size:40
Alignment explanation
Indices: 79289462--79289719 Score: 281
Period size: 40 Copynumber: 6.7 Consensus size: 40
79289452 TTGAATGATG
* *
79289462 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
*
79289501 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATT-CT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TTACTAAA
* *
79289540 TTCGGGCTAA--CCCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
79289577 TTCGGGCTAAG-CCCGAAGGCATTTGTG-GAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
79289615 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
79289654 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
79289695 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
79289720 AACGAGGAGC
Statistics
Matches: 193, Mismatches: 14, Indels: 23
0.84 0.06 0.10
Matches are distributed among these distances:
36 1 0.01
37 41 0.21
38 43 0.22
39 46 0.24
40 53 0.27
41 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:79297538 original size:39 final size:39
Alignment explanation
Indices: 79297402--79297701 Score: 353
Period size: 39 Copynumber: 7.6 Consensus size: 39
79297392 TTGAATGATG
*
79297402 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
79297440 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATTCTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
79297481 TCC-GGCTAAACCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
79297519 TCCGGGCTAAGCCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
79297558 TCCGGGCTAAGCCCGAAGGCATTTGTGAGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
79297597 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
79297636 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
79297675 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
79297702 AACGAGGAGC
Statistics
Matches: 230, Mismatches: 23, Indels: 15
0.86 0.09 0.06
Matches are distributed among these distances:
38 29 0.13
39 141 0.61
40 48 0.21
41 11 0.05
42 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:79297723 original size:79 final size:79
Alignment explanation
Indices: 79297491--79297734 Score: 250
Period size: 78 Copynumber: 3.1 Consensus size: 79
79297481 TCCGGCTAAA
* * * **
79297491 CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCAAAGGCATTTGTGCGAGAT-ACT
1 CCCGAAGGCATTTGTGAGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TGACT
* *
79297555 AATTCCGGGCTAAG-
65 AAATCCGGGTTAAGT
* ** *
79297569 CCCGAAGGCATTTGTGAGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 CCCGAAGGCATTTGTGAGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTA
79297634 AATCCGGGTTAAGT
66 AATCCGGGTTAAGT
*
79297648 CCCGAAGGCATTTGTGCA-A-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-G
1 CCCGAAGGCATTTGTG-AGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTG
* *
79297709 AGCTATATCC-GGTTAAAT
62 A-CTAAATCCGGGTTAAGT
*
79297727 TCCGAAGG
1 CCCGAAGG
79297735 TACGTGATTT
Statistics
Matches: 147, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
77 1 0.01
78 75 0.51
79 45 0.31
80 26 0.18
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCCGAAGGCATTTGTGAGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTA
AATCCGGGTTAAGT
Found at i:79305474 original size:131 final size:133
Alignment explanation
Indices: 79305097--79305624 Score: 411
Period size: 131 Copynumber: 4.0 Consensus size: 133
79305087 TTACCTTACC
** * * * **
79305097 TTAGAA-AATACGAGTGAAATTCCGAAGGGATCTTCGATTGTTTTGAGCAAAAGAGAAAGCGCAA
1 TTAGAAGAA-ACGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAA
* * * ** * * * *
79305161 CCCAGCGCGATAGGGCTTGATT-C-TCAAATCGCCAAACATCGAATATCGCCTTCGTTTTGCAAG
65 CCCAACACGTTAGGGCACGATTCCATCGAATTGACAAACATCGAATATCGCCTTCGTTTT-AAAG
79305224 G-TTT
129 GATTT
* ** * **
79305228 TTA-ATA-AACATGAGTGAAAACCTAAAGGAATATTCGATTATTTTGAGCAAACGAGAAATCACA
1 TTAGA-AGAA-ACGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCA
* * * * ** * * *
79305291 ACCCAGCACGGTAGGGCATG-TTTC-TCGAATTGTTAAACACCGAGTATTGCCTTCGTTTTAAAG
64 ACCCAACACGTTAGGGCACGATTCCATCGAATTGACAAACATCGAATATCGCCTTCGTTTTAAAG
79305354 GATTT
129 GATTT
* ** *
79305359 TTAGAAGAAACGGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAACGAGAAATTGCAAC
1 TTAGAAGAAACGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAAC
** * *
79305424 CCAACACGTTAGGGCACGATTCCAT-GAATT-ACAAGTATCGAATATCGCCTTCGTTTTGAAGAA
66 CCAACACGTTAGGGCACGATTCCATCGAATTGACAAACATCGAATATCGCCTTCGTTTTAAAGGA
79305487 TTT
131 TTT
** * * * * *
79305490 TT-GAAAGGTACGAGTGAAATTTTGAAGAGATATTCAATTGTTTTGAGCAAAC-ACGAAATTGCA
1 TTAG-AAGAAACGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGA-GAAATTGCA
* * * * *
79305553 ACCCAACACGTTAGGGCACTATTCCA-CGAGTTG-CGAAAGATCGAATCTCATCC-TCGTTTTAA
64 ACCCAACACGTTAGGGCACGATTCCATCGAATTGAC-AAACATCGAATATC-GCCTTCGTTTTAA
*
79305615 AGAATTT
127 AGGATTT
79305622 TTA
1 TTA
79305625 AATGAATACT
Statistics
Matches: 319, Mismatches: 64, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
130 9 0.03
131 268 0.84
132 39 0.12
133 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (133 bp):
TTAGAAGAAACGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAAC
CCAACACGTTAGGGCACGATTCCATCGAATTGACAAACATCGAATATCGCCTTCGTTTTAAAGGA
TTT
Found at i:79316656 original size:28 final size:28
Alignment explanation
Indices: 79316616--79316708 Score: 161
Period size: 28 Copynumber: 3.3 Consensus size: 28
79316606 ATGTACTAGA
79316616 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
79316644 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
79316672 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
79316700 ATACCCCTA
1 ATACCCCTA
79316709 GGGTTAATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 62 0.98
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:79316872 original size:27 final size:27
Alignment explanation
Indices: 79316824--79316903 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 27
79316814 CTAGTGGCTA
79316824 TGCCACAAATTATCTGTTCTGGTGGC-C
1 TGCCACAAA-TATCTGTTCTGGTGGCAC
*
79316851 TTGCCACATATATCTGTTCTGGTGGCAC
1 -TGCCACAAATATCTGTTCTGGTGGCAC
79316879 TGCCACAAAATATCTGTATCTGGTG
1 TGCCAC-AAATATCTGT-TCTGGTG
79316904 ACTCTGTCAC
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
27 22 0.47
28 18 0.38
29 7 0.15
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTGGCAC
Found at i:79316922 original size:55 final size:56
Alignment explanation
Indices: 79316824--79316928 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 56
79316814 CTAGTGGCTA
* *
79316824 TGCCACAAATTATCTGTTCTGGTGGCCTTGCCACATATATCTGT-TCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACCTTGCCACATATATCTGTATCTGGTGGCAC
* *
79316879 TGCCACAAAATATCTGTATCTGGTGA-CTCTGTCACAT-TTTCTGTATCTGG
1 TGCCACAAAATATCTGT-TCTGGTGACCT-TGCCACATATATCTGTATCTGG
79316929 CAGCTATGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
55 24 0.56
56 19 0.44
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (56 bp):
TGCCACAAAATATCTGTTCTGGTGACCTTGCCACATATATCTGTATCTGGTGGCAC
Found at i:79317396 original size:18 final size:18
Alignment explanation
Indices: 79317357--79317397 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
79317347 TAATAAGGCC
* *
79317357 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
79317375 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
79317393 TTTTA
1 TTTTA
79317398 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:79324073 original size:37 final size:37
Alignment explanation
Indices: 79324020--79324122 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
79324010 CGAATAGTCC
*
79324020 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
79324057 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
79324094 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
79324123 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:79328223 original size:3 final size:3
Alignment explanation
Indices: 79328215--79328242 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
79328205 TAAAGATGGA
79328215 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
79328243 ATTTGAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:79329374 original size:16 final size:16
Alignment explanation
Indices: 79329353--79329405 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
79329343 GAGTAGAAAG
79329353 AAAATTAGAAAGATAA
1 AAAATTAGAAAGATAA
* *
79329369 AAAATTA-AAGGGGTAA
1 AAAATTAGAA-AGATAA
*
79329385 AAAATTAGAATGATAA
1 AAAATTAGAAAGATAA
*
79329401 TAAAT
1 AAAAT
79329406 AACATAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 2 0.07
16 26 0.87
17 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (16 bp):
AAAATTAGAAAGATAA
Found at i:79330887 original size:51 final size:51
Alignment explanation
Indices: 79330825--79330932 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
79330815 AATATTTCAC
* *
79330825 TCAATACAACTAAATAGAAAGTCCATAATACACTAAAAAAGTTACCTATTCT
1 TCAA-ACAACTAAATAAAAAGTCCATAATACACTAAAAAACTTACCTATTCT
* *
79330877 TCAAACAACTAAATAAAAAGTCCATAATACATTAAAGAACTTACCTATTCT
1 TCAAACAACTAAATAAAAAGTCCATAATACACTAAAAAACTTACCTATTCT
79330928 TCAAA
1 TCAAA
79330933 TGAGGATTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 48 0.92
52 4 0.08
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (51 bp):
TCAAACAACTAAATAAAAAGTCCATAATACACTAAAAAACTTACCTATTCT
Found at i:79339309 original size:16 final size:16
Alignment explanation
Indices: 79339288--79339321 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
79339278 GTGATCTAAA
79339288 CTCATTGAGTTGTGGT
1 CTCATTGAGTTGTGGT
79339304 CTCATTGAGTTGTGGT
1 CTCATTGAGTTGTGGT
79339320 CT
1 CT
79339322 GAGTTCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.29, T:0.44
Consensus pattern (16 bp):
CTCATTGAGTTGTGGT
Found at i:79349113 original size:20 final size:21
Alignment explanation
Indices: 79349065--79349116 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
79349055 AGTCACTTAA
79349065 CAAAACTTTAATATCTATCAT
1 CAAAACTTTAATATCTATCAT
79349086 CAAAACTTTAATATCTATCAT
1 CAAAACTTTAATATCTATCAT
79349107 C-AAACTTTAA
1 CAAAACTTTAA
79349117 AAATTCATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 9 0.29
21 22 0.71
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (21 bp):
CAAAACTTTAATATCTATCAT
Found at i:79359376 original size:18 final size:19
Alignment explanation
Indices: 79359349--79359384 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
79359339 GAATGTACTA
79359349 TTCATATACA-CATATATT
1 TTCATATACATCATATATT
*
79359367 TTCATTTACATCATATAT
1 TTCATATACATCATATAT
79359385 AAATTGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (19 bp):
TTCATATACATCATATATT
Found at i:79359676 original size:56 final size:56
Alignment explanation
Indices: 79359615--79359806 Score: 296
Period size: 56 Copynumber: 3.4 Consensus size: 56
79359605 TCCCAGACAG
* * * *
79359615 GGTCTTAC-CAACACACATAAATCGGAATCACATATCAATGCCAATGTATTAAATGT
1 GGTCTTACTC-ACACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
*
79359671 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
*
79359727 GGTCTTACTCACACACATATATTGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* *
79359783 GATCTTACTCCCACACATATATCG
1 GGTCTTACTCACACACATATATCG
79359807 ATGCCATGGT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
56 124 0.99
57 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:79360731 original size:18 final size:17
Alignment explanation
Indices: 79360701--79360734 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
79360691 ATGCATGATG
*
79360701 AATTTTATTATAACATA
1 AATTTTATAATAACATA
79360718 AATTATTATAATAACAT
1 AATT-TTATAATAACAT
79360735 TTTATTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTTATAATAACATA
Found at i:79362718 original size:40 final size:40
Alignment explanation
Indices: 79362656--79362873 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
79362646 AAGCCAAGTA
* * * * *
79362656 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
79362695 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
79362735 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
79362775 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
79362815 CCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
79362855 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
79362874 TTATCATCCA
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.08
40 146 0.92
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:79370789 original size:40 final size:40
Alignment explanation
Indices: 79370731--79370945 Score: 283
Period size: 40 Copynumber: 5.4 Consensus size: 40
79370721 AAGCCAAGTA
* * * * *
79370731 CCTTCGAGATTTA-CCCGGATATGGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
79370770 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
79370810 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
79370850 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * **
79370890 CCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
79370930 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
79370946 TGGTTATCAT
Statistics
Matches: 160, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 12 0.08
40 148 0.93
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:79389754 original size:40 final size:40
Alignment explanation
Indices: 79389689--79389824 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 40
79389679 ACTATGTTTG
* *
79389689 GCACTTAGTGTGCGTATCGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGAATCGAGATAGCTTCGACTATATAAA
**
79389729 GCACTTTA-TGTGCGAATCG-GAATAGCTTCGACTATATATG
1 GCAC-TTAGTGTGCGAATCGAG-ATAGCTTCGACTATATAAA
* * * *
79389769 GCACTTAGTGTACGAGA-CTTAGATAGCTTCGGCTATGA-AAG
1 GCACTTAGTGTGCGA-ATC-GAGATAGCTTCGACTAT-ATAAA
*
79389810 GCACTAAGTGTGCGA
1 GCACTTAGTGTGCGA
79389825 GATTATAATA
Statistics
Matches: 79, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
39 4 0.05
40 41 0.52
41 32 0.41
42 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATCGAGATAGCTTCGACTATATAAA
Found at i:79389813 original size:41 final size:42
Alignment explanation
Indices: 79389749--79389846 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 42
79389739 TGCGAATCGG
* * *
79389749 AATAGCTTCGACTAT-ATATGGCACTTAGTGTACGAGACTTA-
1 AATAGCTTCGGCTATGATAAGGCACTAAGTGTACGAGA-TTAT
* *
79389790 GATAGCTTCGGCTATGA-AAGGCACTAAGTGTGCGAGATTAT
1 AATAGCTTCGGCTATGATAAGGCACTAAGTGTACGAGATTAT
*
79389831 AATAGCTTCAGCTATG
1 AATAGCTTCGGCTATG
79389847 CTTTGGTACT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.06
41 44 0.92
42 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
AATAGCTTCGGCTATGATAAGGCACTAAGTGTACGAGATTAT
Found at i:79394014 original size:23 final size:23
Alignment explanation
Indices: 79393953--79394029 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
79393943 TATCGATATA
* * * *
79393953 TCAGCTCGTAAGATCTTACTGTT
1 TCAGCTCGTATGAGCGTACTATT
*
79393976 CTCAGCTCGTATGAGCTTACTAATT
1 -TCAGCTCGTATGAGCGTACT-ATT
79394001 T-AGCTCGT-TAGAGCGTACTATT
1 TCAGCTCGTAT-GAGCGTACTATT
79394023 TCAGCTC
1 TCAGCTC
79394030 AATAAAGCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 5 0.11
23 20 0.43
24 19 0.41
25 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (23 bp):
TCAGCTCGTATGAGCGTACTATT
Found at i:79394042 original size:23 final size:23
Alignment explanation
Indices: 79393989--79394042 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
79393979 AGCTCGTATG
** *
79393989 AGCTTACTAATTTAGCTCGTTAG
1 AGCTTACTAATTTAGCTCAATAA
*
79394012 AGCGTACT-ATTTCAGCTCAATAA
1 AGCTTACTAATTT-AGCTCAATAA
79394035 AGCTTACT
1 AGCTTACT
79394043 GTTCATCAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (23 bp):
AGCTTACTAATTTAGCTCAATAA
Found at i:79396469 original size:40 final size:40
Alignment explanation
Indices: 79396432--79396547 Score: 180
Period size: 40 Copynumber: 2.9 Consensus size: 40
79396422 GGATATAGCT
* *
79396432 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
79396472 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
79396512 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
79396548 CATCCAAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
39 2 0.03
40 66 0.94
41 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:79404601 original size:23 final size:23
Alignment explanation
Indices: 79404569--79404618 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
79404559 TAGTAGATTG
*
79404569 TACTAATTCAGCTC-GTCAGAGCT
1 TACTAATTCAGCTCAAT-AGAGCT
*
79404592 TACTATTTCAGCTCAATAGAGCT
1 TACTAATTCAGCTCAATAGAGCT
79404615 TACT
1 TACT
79404619 GTTCATTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (23 bp):
TACTAATTCAGCTCAATAGAGCT
Found at i:79405791 original size:65 final size:64
Alignment explanation
Indices: 79405645--79405814 Score: 168
Period size: 65 Copynumber: 2.6 Consensus size: 64
79405635 TAGTATGCTC
* * *
79405645 CACACGGCCT-CACACATGGGCGTGTGAC-TGGCCGTGTGGTACAAGTCAGTATATCCCCTAAAT
1 CACACGGCCTAC-CACACGGGCGTGTGACTTGGCCGTGT-G-ATAAGTCAGTATATCCCCCAAAT
79405708 GA
63 GA
* * * ** *
79405710 CACAAGGCCAAGCACACGGGCGTGTGACTTGGCCGTGCTGATAAGTCAGTATA-CCCTCCAGTTT
1 CACACGGCCTACCACACGGGCGTGTGACTTGGCCGTG-TGATAAGTCAGTATATCCC-CCAAATG
*
79405774 T
64 A
*
79405775 CACACGGCCTACCACACGGGCGTGT-ATTTGGCCGTGTGAT
1 CACACGGCCTACCACACGGGCGTGTGACTTGGCCGTGTGAT
79405815 GCAACTCAGT
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
63 4 0.05
64 13 0.15
65 60 0.69
66 9 0.10
67 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.22
Consensus pattern (64 bp):
CACACGGCCTACCACACGGGCGTGTGACTTGGCCGTGTGATAAGTCAGTATATCCCCCAAATGA
Found at i:79410227 original size:39 final size:40
Alignment explanation
Indices: 79410077--79410246 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
79410067 CGACTAAGAT
* * *
79410077 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
79410117 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
79410157 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
79410197 CCGAAGGCATT-ATGTGAGTTACTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
79410236 CCGAAGGCATT
1 CCGAAGGCATT
79410247 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 34 0.29
40 83 0.71
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:79410266 original size:79 final size:80
Alignment explanation
Indices: 79410099--79410281 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
79410089 GTGCGAGATA
* * *
79410099 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
** **
79410164 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
79410179 TTAAATCCGGGTTATGTCCCGAAGGCATT-ATGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
*
79410243 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
79410258 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
79410282 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:79418140 original size:39 final size:40
Alignment explanation
Indices: 79417979--79418146 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
79417969 GGACTAAGAT
* * *
79417979 CCGAAGGCCTTTGTGCGAGATACT-AATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
79418018 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
79418058 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGT-
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
79418097 CCGAAGGCATT-ATGTGAGTTACTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
79418136 CCGAAGGCATT
1 CCGAAGGCATT
79418147 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 22 0.19
39 42 0.37
40 50 0.44
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:79418166 original size:78 final size:80
Alignment explanation
Indices: 79418003--79418181 Score: 202
Period size: 78 Copynumber: 2.3 Consensus size: 80
79417993 GCGAGATACT
* * *
79418003 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCAT
** ** *
79418068 TCGTGCGAGTTGTTA
66 TCGAACGAGGAGCTA
* * * *
79418083 AATCCGGGTTATGT-CCGAAGGCATT-ATGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCAT
*
79418146 TTGAACGAGGAGCTA
66 TCGAACGAGGAGCTA
* *
79418161 TATCC-GGTTAAATCCCGAAGG
1 AATCCGGGTTAAGTCCCGAAGG
79418182 TACGTGATTT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
77 6 0.07
78 52 0.63
79 11 0.13
80 13 0.16
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
AATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCAT
TCGAACGAGGAGCTA
Found at i:79432517 original size:26 final size:26
Alignment explanation
Indices: 79432488--79432592 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
79432478 TGGTACAAAT
79432488 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
79432514 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79432540 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79432566 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79432592 T
1 T
79432593 TATGGACATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:79434302 original size:54 final size:54
Alignment explanation
Indices: 79434220--79434358 Score: 226
Period size: 54 Copynumber: 2.6 Consensus size: 54
79434210 GAAGCGTCCA
*
79434220 GGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTATTCT
1 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTATTCT
* *
79434274 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCT
1 GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTATTCT
*
79434328 GGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GGTGGCTATGCCACAATTATCTG-ATCTGGTG
79434359 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTATTCT
Found at i:79434369 original size:27 final size:27
Alignment explanation
Indices: 79434220--79434376 Score: 171
Period size: 27 Copynumber: 5.8 Consensus size: 27
79434210 GAAGCGTCCA
* *
79434220 GGTGGCTATGCCACAATTATCT-AATCT
1 GGTGGCTCTGCCACAA-TATCTGTATCT
* *
79434247 GGTGGCTCTACCACATATATCTAT-TCT
1 GGTGGCTCTGCCACA-ATATCTGTATCT
*
79434274 GGTGGCTATGCCACAATTATCTG-ATCT
1 GGTGGCTCTGCCACAA-TATCTGTATCT
79434301 GGTGGCTCTGCCACATATATCTGT-TCT
1 GGTGGCTCTGCCACA-ATATCTGTATCT
79434328 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* *
79434355 GGTGACT-TCGTCACAATATCTG
1 GGTGGCTCT-GCCACAATATCTG
79434377 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:79434370 original size:81 final size:80
Alignment explanation
Indices: 79434220--79434376 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 80
79434210 GAAGCGTCCA
*
79434220 GGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTATTCTGGTGGCTATGC
1 GGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTATTCTGGTGACTATGC
79434285 CACAATTATCTGATCT
66 CACAA-TATCTGATCT
* ** * *
79434301 GGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-T
1 GGTGGCTATGCCACAAT-TATCTAATCTGGTGGCTCTACCACATATATCTAT-TCTGGTGACTAT
*
79434363 CGTCACAATATCTG
64 -GCCACAATATCTG
79434377 GCAGCCTCGC
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
80 16 0.24
81 50 0.76
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (80 bp):
GGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTATTCTGGTGACTATGC
CACAATATCTGATCT
Found at i:79436715 original size:42 final size:40
Alignment explanation
Indices: 79436555--79436707 Score: 128
Period size: 42 Copynumber: 3.7 Consensus size: 40
79436545 TGAGTTTACG
* * * **
79436555 TGTAAGACCATATTTGGGATACGACATCGTTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGA--TCA
* * * * *
79436597 TGTAAAACCATGTCTGGGACATGGAATCAATATGAGAATCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAG-ATCA
* *
79436638 TTTAAGACCAT-TGCTGGGCTATTGGCATCAATATGAGATCCCA
1 TGTAAGACCATAT-CTGGGATA-TGGCATCAATATGAGAT--CA
79436681 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
79436708 TGGTATGATT
Statistics
Matches: 87, Mismatches: 18, Indels: 12
0.74 0.15 0.10
Matches are distributed among these distances:
40 1 0.01
41 19 0.22
42 47 0.54
43 19 0.22
44 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (40 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATCA
Found at i:79437800 original size:30 final size:30
Alignment explanation
Indices: 79437766--79437836 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
79437756 ACACAGGTAT
79437766 GAGACACGGCCATGTGTCTCGACCGTGTGA
1 GAGACACGGCCATGTGTCTCGACCGTGTGA
79437796 GAGACACGGCCATGTGTCTCGACCGTGTGA
1 GAGACACGGCCATGTGTCTCGACCGTGTGA
79437826 GAGACACGGCC
1 GAGACACGGCC
79437837 TTAGGACATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.17
Consensus pattern (30 bp):
GAGACACGGCCATGTGTCTCGACCGTGTGA
Found at i:79438756 original size:43 final size:43
Alignment explanation
Indices: 79438681--79438762 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
79438671 AATGGCATAT
* * *
79438681 CCCAGATATGGTCTTACATGTGATCTTGTATCGATGCCAATAG
1 CCCAGATATGGTCTTACACGAGATCTTATATCGATGCCAATAG
*
79438724 CCCAGTTATGGTCTTACACGA-AGTCTTATATCGATGCCA
1 CCCAGATATGGTCTTACACGAGA-TCTTATATCGATGCCA
79438763 TATACTTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (43 bp):
CCCAGATATGGTCTTACACGAGATCTTATATCGATGCCAATAG
Found at i:79442103 original size:6 final size:6
Alignment explanation
Indices: 79442085--79442144 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
79442075 AAGAAACATT
* *
79442085 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
79442134 ATCAGT ATCAG
1 ATCAGA ATCAG
79442145 GTAACATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
5 2 0.05
6 38 0.86
7 3 0.07
8 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:79442130 original size:25 final size:25
Alignment explanation
Indices: 79442099--79442193 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
79442089 GAACTAGAAT
* *
79442099 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
79442124 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* * * *
79442149 CATAATCAAAATCAAAATC-GGTAT
1 CAGAATCAGAATCAGAATCAGGTAA
*
79442173 CAGGTAA-CAGAATCAAAATCA
1 CA-G-AATCAGAATCAGAATCA
79442194 AAATGTGAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
24 6 0.11
25 49 0.86
26 2 0.04
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:79442162 original size:31 final size:31
Alignment explanation
Indices: 79442127--79442197 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
79442117 TAGGTGACAG
* *
79442127 AATCAGAATCAGTATCAGGTAACATAATCAA
1 AATCAAAATCAGTATCAGGTAACAGAATCAA
*
79442158 AATCAAAATCGGTATCAGGTAACAGAATCAA
1 AATCAAAATCAGTATCAGGTAACAGAATCAA
79442189 AATCAAAAT
1 AATCAAAAT
79442198 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (31 bp):
AATCAAAATCAGTATCAGGTAACAGAATCAA
Found at i:79442735 original size:54 final size:54
Alignment explanation
Indices: 79442626--79442776 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 54
79442616 TACCCCACAA
* * * * **
79442626 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACAATACAG
79442680 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACAA-ATCAG
1 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACAATA-CAG
* ** *
79442734 GGGTATTTTGGTAATTT-TA-CAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCGGT-ATTTCTACCCTA-CAAGGGTATTTCGGTAATT
79442777 TTATTGATCG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
53 3 0.04
54 77 0.92
55 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (54 bp):
GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACAATACAG
Found at i:79442737 original size:27 final size:27
Alignment explanation
Indices: 79442608--79442749 Score: 178
Period size: 27 Copynumber: 5.3 Consensus size: 27
79442598 GGGGCAAAAT
* * * *
79442608 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
79442635 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
79442662 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
79442689 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
79442716 GGTAATTCTA-CAAATCAGGGGTATTTT
1 GGTAATTCTACCCTA-CAGGGGTATTTC
79442743 GGTAATT
1 GGTAATT
79442750 TTACAAACCA
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.02
27 99 0.98
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:79442765 original size:81 final size:80
Alignment explanation
Indices: 79442612--79442779 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 80
79442602 CAAAATGGTA
** **
79442612 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
1 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACAATACAGGGGTATTTCAGTAATTCTACCAAA
*
79442677 CAGGGGTATTTCGGT
66 CAAGGGTATTTCGGT
* * ** *
79442692 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACAA-ATCAGGGGTATTTTGGTAATTTTA-CA
1 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACAATA-CAGGGGTATTTCAGTAATTCTACCA
*
79442755 AACCAAGGGTATTTTGGT
64 AA-CAAGGGTATTTCGGT
79442773 AATTTTA
1 -ATTTTA
79442780 TTGATCGAGG
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
80 7 0.10
81 62 0.85
82 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATCTCGGTAATTCTACAATACAGGGGTATTTCAGTAATTCTACCAAA
CAAGGGTATTTCGGT
Found at i:79442792 original size:54 final size:54
Alignment explanation
Indices: 79442704--79442846 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 54
79442694 TTCTACCCTA
* * *
79442704 CAAGGGTATTTCGGTAATTCTACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAAC
** ** **
79442758 CAAGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
* *
79442812 TAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
79442847 AAATGGTAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
54 74 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
Found at i:79442844 original size:27 final size:27
Alignment explanation
Indices: 79442706--79442900 Score: 126
Period size: 27 Copynumber: 7.2 Consensus size: 27
79442696 CTACCCTACA
* **
79442706 AGGGTATTTCGGTAATTCTACAAATC-
1 AGGGTATTTCGGTAATTTTGTAAATCG
* ** * *
79442732 AGGGGTATTTTGGTAATTTTACAAACCA
1 A-GGGTATTTCGGTAATTTTGTAAATCG
* * **
79442760 AGGGTATTTTGGTAATTTTATTGATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
* *
79442787 AGGGTATTTTGGTAATTTTGTAAA-CTA
1 AGGGTATTTCGGTAATTTTGTAAATC-G
*
79442814 AGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
** * *
79442841 AGGGTAAAAT-GGTAATTCTGTAAATTG
1 AGGGT-ATTTCGGTAATTTTGTAAATCG
*** * *
79442868 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
79442895 AGGGTA
1 AGGGTA
79442901 AAATGATAAT
Statistics
Matches: 140, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
26 5 0.04
27 131 0.94
28 4 0.03
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTGTAAATCG
Found at i:79442854 original size:54 final size:54
Alignment explanation
Indices: 79442742--79442911 Score: 169
Period size: 54 Copynumber: 3.1 Consensus size: 54
79442732 AGGGGTATTT
** * ** * ** ***
79442742 TGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATTGATCGAGGGTATTT
1 TGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAA
79442796 TGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAA
* * * *** *
79442850 TGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAA
*
79442904 TGATAATT
1 TGGTAATT
79442912 CTATCTTATT
Statistics
Matches: 97, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.37
Consensus pattern (54 bp):
TGGTAATTTTGTAAACTAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAA
Found at i:79442910 original size:27 final size:27
Alignment explanation
Indices: 79442826--79442913 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
79442816 GGTATTTCAG
* *
79442826 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGA
* *
79442853 TAATTCTGTAAATTGAGGGTAAAA-CA
1 TAATTCTGTAAATCGAGGGTAAAATGA
79442879 GTAATTCTGTAAATCGAGGGTAAAATGA
1 -TAATTCTGTAAATCGAGGGTAAAATGA
79442907 TAATTCT
1 TAATTCT
79442914 ATCTTATTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATGA
Found at i:79442989 original size:54 final size:54
Alignment explanation
Indices: 79442926--79443154 Score: 271
Period size: 54 Copynumber: 4.2 Consensus size: 54
79442916 CTTATTTCGA
* * * *** * * *
79442926 TAATTTTACAAATCGAAGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGG
1 TAATTTTACAAACCGAGGGTATTTCAATAATTTCACAAATCAGGGGTACTTTGG
* *
79442980 TAATTTTACAAGCCGAGGGTATTTCAATAATTTCACAAATCGGGGGTACTTTGG
1 TAATTTTACAAACCGAGGGTATTTCAATAATTTCACAAATCAGGGGTACTTTGG
* *
79443034 TAATTTTACAAGCCGAGGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCGAGGGTATTTCAATAATTTCACAAATCAGGGGTACTTTGG
* ** * * *
79443088 TAATTTTACAAA-CTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCGA-GGGTATTTCAATAATTTCACAAATCAGGGGTACTTTGG
79443142 TAATTTTACAAAC
1 TAATTTTACAAAC
79443155 TAGGGGTATT
Statistics
Matches: 156, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
53 2 0.01
54 154 0.99
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (54 bp):
TAATTTTACAAACCGAGGGTATTTCAATAATTTCACAAATCAGGGGTACTTTGG
Found at i:79443053 original size:27 final size:28
Alignment explanation
Indices: 79442926--79443200 Score: 237
Period size: 27 Copynumber: 10.2 Consensus size: 28
79442916 CTTATTTCGA
* * * *
79442926 TAATTTTACAAATCGA-AGATATTTGGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
* * *
79442953 TAATTTTATAAATCG-GGGGTACTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
* ***
79442980 TAATTTTACAAGCCGA-GGGTATTTCAA
1 TAATTTTACAAACCGAGGGGTATTTTGG
* * *
79443007 TAATTTCACAAATCG-GGGGTACTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
* ***
79443034 TAATTTTACAAGCCGA-GGGTATTTCAA
1 TAATTTTACAAACCGAGGGGTATTTTGG
* *
79443061 TAATTTCACAAATC-AGGGGTATTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
* *
79443088 TAATTTTACAAA-CTAGGGGTATTTTGA
1 TAATTTTACAAACCGAGGGGTATTTTGG
79443115 TAATTTTACAAACC-AGGGGTATTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
*
79443142 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
** **
79443169 TAATTTTGTAAACC-AAAGGTATTTTGG
1 TAATTTTACAAACCGAGGGGTATTTTGG
79443196 TAATT
1 TAATT
79443201 CTATCCTACA
Statistics
Matches: 200, Mismatches: 39, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.01
27 195 0.98
28 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (28 bp):
TAATTTTACAAACCGAGGGGTATTTTGG
Found at i:79443173 original size:54 final size:54
Alignment explanation
Indices: 79442926--79443200 Score: 268
Period size: 54 Copynumber: 5.1 Consensus size: 54
79442916 CTTATTTCGA
* * * * * * *
79442926 TAATTTTACAAATC-GAAGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGG
1 TAATTTTACAAA-CAGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
* * * * * *
79442980 TAATTTTACAAGCCGAGGGTATTTCAATAATTTCACAAATCGGGGGTACTTTGG
1 TAATTTTACAAACAGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
* * * *
79443034 TAATTTTACAAGCCGAGGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACAGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
* *
79443088 TAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAAC-AGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
* * ** * **
79443142 TAATTTTACAAACTAG-GGGTATTTTGGTAATTTTGTAAACCAAAGGTATTTTGG
1 TAATTTTACAAAC-AGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
79443196 TAATT
1 TAATT
79443201 CTATCCTACA
Statistics
Matches: 198, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 196 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
TAATTTTACAAACAGAGGGTATTTCGATAATTTTACAAATCAGGGGTATTTTGG
Found at i:79443226 original size:81 final size:81
Alignment explanation
Indices: 79443054--79443226 Score: 188
Period size: 81 Copynumber: 2.1 Consensus size: 81
79443044 AGCCGAGGGT
* * **
79443054 ATTTCAATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAAT
1 ATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAAGGTATTTTGATAAT
* *
79443119 TTTACAAACCAGGGGT
66 TCTACAAACCAGGGGC
** * ** *
79443135 ATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTGTAAACCAAAGGTATTTTGGTAA
1 ATTTCAGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAAAGGTATTTTGATAA
**
79443199 TTCTATCCTA-CAGGGGC
65 TTCTA-CAAACCAGGGGC
79443216 ATTTCAGTAAT
1 ATTTCAGTAAT
79443227 GCTAGTCTAT
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
80 1 0.01
81 71 0.96
82 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (81 bp):
ATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAAGGTATTTTGATAAT
TCTACAAACCAGGGGC
Found at i:79452765 original size:23 final size:23
Alignment explanation
Indices: 79452735--79452782 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
79452725 AATTTGGCAC
79452735 TTAGTGTGCGATTTGAGATAGCT
1 TTAGTGTGCGATTTGAGATAGCT
79452758 TTAGTGTGCGATTTGAGATAGCT
1 TTAGTGTGCGATTTGAGATAGCT
79452781 TT
1 TT
79452783 GGCTATGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.29, T:0.42
Consensus pattern (23 bp):
TTAGTGTGCGATTTGAGATAGCT
Found at i:79452854 original size:28 final size:28
Alignment explanation
Indices: 79452823--79452900 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
79452813 TCAAATATGA
79452823 CACTTAGTGTGCGAAATATTGAGAATGG
1 CACTTAGTGTGCGAAATATTGAGAATGG
79452851 CACTTAGTGTGCGAAATATTGAGAATGG
1 CACTTAGTGTGCGAAATATTGAGAATGG
*
79452879 CA-TTCAGTGTGCAAAATATTGA
1 CACTT-AGTGTGCGAAATATTGA
79452901 ATGACTCAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 2 0.04
28 46 0.96
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTGAGAATGG
Found at i:79455751 original size:24 final size:24
Alignment explanation
Indices: 79455718--79455806 Score: 101
Period size: 24 Copynumber: 3.7 Consensus size: 24
79455708 TCTTACTTAT
*
79455718 TCGCAGACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTTTTC
* **
79455742 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTTTTC
79455766 TCGCACACATAGTGCCACTTAGTTTT-
1 TCGCACACATAGTGCCAC---GTTTTC
79455792 T-GCACACATAGTGCC
1 TCGCACACATAGTGCC
79455807 GCATAACCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
24 37 0.67
25 14 0.25
26 1 0.02
27 3 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTTTTC
Found at i:79455797 original size:49 final size:48
Alignment explanation
Indices: 79455718--79455829 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 48
79455708 TCTTACTTAT
* ** *
79455718 TCGCAGACATAGTGCCACGTTTTCTCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCACATAACC
*
79455766 TCGCACACATAGTGCCACTTAGTTTT-T-GCACACATAGTGCCGCATAACC
1 TCGCACACATAGTGCCAC---GTTTTCTCGCACACATAGTGCCACATAACC
*
79455815 TTGCACACATAGTGC
1 TCGCACACATAGTGC
79455830 TGAAATTTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 17 0.31
49 32 0.58
50 1 0.02
51 5 0.09
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
TCGCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCACATAACC
Found at i:79457751 original size:15 final size:15
Alignment explanation
Indices: 79457731--79457760 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
79457721 AAAATGTGTT
79457731 GGTGATGAGTTGAAA
1 GGTGATGAGTTGAAA
79457746 GGTGATGAGTTGAAA
1 GGTGATGAGTTGAAA
79457761 ATCATAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.27
Consensus pattern (15 bp):
GGTGATGAGTTGAAA
Found at i:79468396 original size:20 final size:20
Alignment explanation
Indices: 79468351--79468397 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
79468341 AAGATGACAT
*
79468351 CAAATTAACTTTTTGTTTTA
1 CAAATTAACTTTTTATTTTA
**
79468371 TTAATTAACTTTTTATTTTA
1 CAAATTAACTTTTTATTTTA
79468391 CAAATTA
1 CAAATTA
79468398 CCTTAATAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (20 bp):
CAAATTAACTTTTTATTTTA
Found at i:79477315 original size:42 final size:42
Alignment explanation
Indices: 79477252--79477336 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
79477242 ACACGCAAAG
*
79477252 TAAGCTTTCAAAAGCTTAGTAAGCCATATACAAATAAACTTA
1 TAAGCTTTCAAAAGCTCAGTAAGCCATATACAAATAAACTTA
79477294 TAAGCTTTCAAAAGCTCAGTAAGCCATATACAAATAAACTTA
1 TAAGCTTTCAAAAGCTCAGTAAGCCATATACAAATAAACTTA
79477336 T
1 T
79477337 CACATAACAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (42 bp):
TAAGCTTTCAAAAGCTCAGTAAGCCATATACAAATAAACTTA
Found at i:79477657 original size:43 final size:42
Alignment explanation
Indices: 79477596--79477704 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 42
79477586 AATGCCAACG
* * * **
79477596 TCCCAGACGTGGTTTTACATGTAATCAAATATCGATGTC-ACTA
1 TCCCAGACATGGTCTTACATGTAATCAAATA-CAATACCGA-TA
* * *
79477639 TCCCAGACATGGTCTTACACGAAATCAAATACAATACCGATG
1 TCCCAGACATGGTCTTACATGTAATCAAATACAATACCGATA
*
79477681 TCCCAAACATGGTCTTACATGTAA
1 TCCCAGACATGGTCTTACATGTAA
79477705 ATCTCAAATC
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 26 0.48
43 28 0.52
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGTAATCAAATACAATACCGATA
Found at i:79480858 original size:11 final size:11
Alignment explanation
Indices: 79480842--79480866 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
79480832 CAAAATAAAA
79480842 ATGATTATTTT
1 ATGATTATTTT
79480853 ATGATTATTTT
1 ATGATTATTTT
79480864 ATG
1 ATG
79480867 GTCCATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (11 bp):
ATGATTATTTT
Found at i:79484752 original size:42 final size:43
Alignment explanation
Indices: 79484644--79484774 Score: 151
Period size: 43 Copynumber: 3.0 Consensus size: 43
79484634 AGCTTCTACA
** * * *
79484644 ATGCCAACGTCCCAGATGTGGTGTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAACATCG
* *
79484687 ATGCC-ACTGTCCCAAACAGGGTCTTACATGAAATCAAACA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAAATCAAACATCG
79484729 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCATAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AAATCA-AACATCG
79484773 AT
1 AT
79484775 ACGAACGTTG
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 29 0.39
43 39 0.53
44 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAACATCG
Found at i:79497441 original size:40 final size:40
Alignment explanation
Indices: 79497397--79497493 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
79497387 AAAACATCAT
* *
79497397 TATAGATCGAGCATTAGTGACAATTTTTGAAAAACA-CCGC
1 TATAGATCGAGCATTAGAGACAATTTTT-AAAAAAAGCCGC
* * *
79497437 TATAGATAGAGCATTAGAGGCACTTTTTAAAAAAAGCCGC
1 TATAGATCGAGCATTAGAGACAATTTTTAAAAAAAGCCGC
* *
79497477 TATAGGTCGACCATTAG
1 TATAGATCGAGCATTAG
79497494 CGGTGCTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 6 0.12
40 42 0.88
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (40 bp):
TATAGATCGAGCATTAGAGACAATTTTTAAAAAAAGCCGC
Found at i:79497659 original size:40 final size:41
Alignment explanation
Indices: 79497573--79497750 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 41
79497563 ATTAGTGGCT
* **
79497573 CTTTTTGAAAAACGCCGCTATAGATCGAAGCATTAGCGGTG
1 CTTTTTAAAAAACGCCGCTATAGATCGAAGCATTAGCGACG
* *
79497614 C-TTTTAAAAAAAGCAGCTAT-GAATC-AAGCATTAGCGACG
1 CTTTTTAAAAAACGCCGCTATAG-ATCGAAGCATTAGCGACG
* * *
79497653 CTTTTTAAAAAACGCCGCTATAGGTC-AATG-ATTAGCGGCA
1 CTTTTTAAAAAACGCCGCTATAGATCGAA-GCATTAGCGACG
* * * * *
79497693 CTTTTTGAAAAACGCCACTATAGATCG-AGCTTTAGCGGCA
1 CTTTTTAAAAAACGCCGCTATAGATCGAAGCATTAGCGACG
* *
79497733 CTTTATCAAAAACGCCGC
1 CTTTTTAAAAAACGCCGC
79497751 AAAAAACATT
Statistics
Matches: 114, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
39 15 0.13
40 96 0.84
41 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (41 bp):
CTTTTTAAAAAACGCCGCTATAGATCGAAGCATTAGCGACG
Found at i:79497728 original size:80 final size:80
Alignment explanation
Indices: 79497573--79497750 Score: 184
Period size: 80 Copynumber: 2.2 Consensus size: 80
79497563 ATTAGTGGCT
* **
79497573 CTTTTTGAAAAACGCCGCTATAGATCGAAGCATTAGCGGTGCTTTTAAAAAAAGCAGCTATGAAT
1 CTTTTTAAAAAACGCCGCTATAGATCGAAGCATTAGCGGCACTTTTAAAAAAAGCAGCTATGAAT
*
79497638 CAAGCATTAGCGACG
66 CAAGCATTAGCGACA
* * *
79497653 CTTTTTAAAAAACGCCGCTATAGGTC-AATG-ATTAGCGGCACTTTTTGAAAAACGCCA-CTAT-
1 CTTTTTAAAAAACGCCGCTATAGATCGAA-GCATTAGCGGCAC-TTTTAAAAAAAG-CAGCTATG
* * *
79497714 AGATCGAGCTTTAGCGGCA
63 A-ATCAAGCATTAGCGACA
* *
79497733 CTTTATCAAAAACGCCGC
1 CTTTTTAAAAAACGCCGC
79497751 AAAAAACATT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
79 12 0.15
80 68 0.83
81 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (80 bp):
CTTTTTAAAAAACGCCGCTATAGATCGAAGCATTAGCGGCACTTTTAAAAAAAGCAGCTATGAAT
CAAGCATTAGCGACA
Found at i:79498070 original size:14 final size:14
Alignment explanation
Indices: 79498053--79498179 Score: 78
Period size: 14 Copynumber: 8.9 Consensus size: 14
79498043 TCATTATAGG
79498053 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
* * *
79498067 TTAGGATTTAAGCT
1 TTAGGGTTTATGGT
79498081 TTAGGAGTTACTAT--T
1 TTAGG-GTT--TATGGT
* *
79498096 TTAAGGTTTATGGA
1 TTAGGGTTTATGGT
** * *
79498110 TTATCAGTTTAGGGA
1 TTA-GGGTTTATGGT
*
79498125 TTATGGTTTATGGT
1 TTAGGGTTTATGGT
* *
79498139 ATATGGTTTATGGT
1 TTAGGGTTTATGGT
* *
79498153 TTATGGTTTATGAT
1 TTAGGGTTTATGGT
79498167 TTAGGGTTTATGG
1 TTAGGGTTTATGG
79498180 GGATAGGGGT
Statistics
Matches: 88, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
12 3 0.03
14 65 0.74
15 18 0.20
17 2 0.02
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:79498113 original size:7 final size:7
Alignment explanation
Indices: 79498095--79498179 Score: 89
Period size: 7 Copynumber: 12.0 Consensus size: 7
79498085 GAGTTACTAT
*
79498095 TTTAAGG
1 TTTATGG
79498102 TTTATGG
1 TTTATGG
* *
79498109 ATTATCAG
1 TTTAT-GG
*
79498117 TTTAGGG
1 TTTATGG
*
79498124 ATTATGG
1 TTTATGG
79498131 TTTATGG
1 TTTATGG
*
79498138 TATATGG
1 TTTATGG
79498145 TTTATGG
1 TTTATGG
79498152 TTTATGG
1 TTTATGG
*
79498159 TTTATGA
1 TTTATGG
*
79498166 TTTAGGG
1 TTTATGG
79498173 TTTATGG
1 TTTATGG
79498180 GGATAGGGGT
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 58 0.94
8 4 0.06
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:79498594 original size:21 final size:21
Alignment explanation
Indices: 79498568--79498615 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
79498558 TTAGGGTGTA
*
79498568 GGTTTATGGTCTAGGATTTAG
1 GGTTTATGGACTAGGATTTAG
*
79498589 GGTTTATGGACTAGGATTTGG
1 GGTTTATGGACTAGGATTTAG
79498610 GGTTTA
1 GGTTTA
79498616 GGTTTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.04, G:0.35, T:0.42
Consensus pattern (21 bp):
GGTTTATGGACTAGGATTTAG
Found at i:79500971 original size:14 final size:14
Alignment explanation
Indices: 79500952--79500979 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
79500942 AATATGGTAT
79500952 TAATATCATATACA
1 TAATATCATATACA
79500966 TAATATCATATACA
1 TAATATCATATACA
79500980 CAATCTCGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATATCATATACA
Found at i:79508123 original size:50 final size:43
Alignment explanation
Indices: 79508092--79508173 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
79508082 CGGTTAGCGG
*
79508092 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCATTAGCTA
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCTA
**
79508135 CGTTTGTGGGAAAAGCGCCGCTAAAATTCATGTTCTTTA
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTA
79508174 ACCGAGTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCTA
Found at i:79515396 original size:26 final size:26
Alignment explanation
Indices: 79515358--79515416 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
79515348 GCCATTAGGG
*
79515358 TGTAGCAGGCTTTG-GATCGGTGTATA
1 TGTAGCAAGCTTTGTG-TCGGTGTATA
* *
79515384 TTTAGCAAGCTTTGTGTCTGTGTATA
1 TGTAGCAAGCTTTGTGTCGGTGTATA
79515410 TGTAGCA
1 TGTAGCA
79515417 GACTTAGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.39
Consensus pattern (26 bp):
TGTAGCAAGCTTTGTGTCGGTGTATA
Found at i:79518595 original size:96 final size:96
Alignment explanation
Indices: 79518435--79518770 Score: 410
Period size: 96 Copynumber: 3.5 Consensus size: 96
79518425 GAAGCCATAC
** * * ** *
79518435 TCCAAACATGGTCTTATGCTGGCTCACATGTCGA-GGCTGATGCCATGTCCTAGACATGGCCTTA
1 TCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGCCAATGCCATGTCCTAGACATGGTCTTA
* *
79518499 CACTAGCTCTC-TTCTCAATGCCGATGCCATGT
65 CACTAGCTCTCATT-ACATTGCCGATGCCATGT
* * * * * * * *
79518531 CCCAGACATGGTATTACACTAGCGCACATATCAAT-GCCGATGCCATGTCCTAGACATAGTCTTA
1 TCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGCCAATGCCATGTCCTAGACATGGTCTTA
*
79518595 CACTGGCTCTCATTACATTGCCGATGCCATGT
65 CACTAGCTCTCATTACATTGCCGATGCCATGT
* *
79518627 TCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCAATGCCATGT-CTCGGACATGGTCTTA
1 TCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCATGTCCT-AGACATGGTCTTA
* *
79518691 GACTAGCTCTCATTACATTGTCGATGCCATGT
65 CACTAGCTCTCATTACATTGCCGATGCCATGT
79518723 TCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCATGT
1 TCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCATGT
79518771 AACACCCCGT
Statistics
Matches: 207, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
95 3 0.01
96 202 0.98
97 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (96 bp):
TCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCATGTCCTAGACATGGTCTTAC
ACTAGCTCTCATTACATTGCCGATGCCATGT
Found at i:79518696 original size:144 final size:145
Alignment explanation
Indices: 79518435--79518770 Score: 353
Period size: 144 Copynumber: 2.3 Consensus size: 145
79518425 GAAGCCATAC
* ** * * * *
79518435 TCCAAACATGGTCTTATGCTGGCTCACATGTCGA-GGCTGATGCCATG-TCCTAGACATGGCCTT
1 TCCAAACATAGTCTTACACTGGCTCTCATATC-ATGGCCGATGCCATGTTCCTAAACATGGCCTT
* * *
79518498 ACACTAGCTCTCTTCTCAATGCCGATGCCATGTCCCAGACATGGTATTACACTAGCGCACA-TAT
65 ACACTAGCTCTCATATCAATGCCAATGCCATGTCCCAGACATGGTATTACACTAGCGCACATTA-
79518562 CAATGCCGATGCCATG-
129 CAATGCCGATGCCATGT
* * *
79518578 TCCTAGACATAGTCTTACACTGGCTCTCAT-TACATTGCCGATGCCATGTTCC-AAACATGGTCT
1 TCC-AAACATAGTCTTACACTGGCTCTCATAT-CATGGCCGATGCCATGTTCCTAAACATGGCCT
* * * * * * * *
79518641 TACACTGGCTCTCATATC-GTGGCCAATGCCATGTCTCGGACATGGTCTTAGACTAGCTCTCATT
64 TACACTAGCTCTCATATCAAT-GCCAATGCCATGTCCCAGACATGGTATTACACTAGCGCACATT
* *
79518705 ACATTGTCGATGCCATGT
128 ACAATGCCGATGCCATGT
* *
79518723 TCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCATGT
1 TCCAAACATAGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGT
79518771 AACACCCCGT
Statistics
Matches: 159, Mismatches: 26, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
143 6 0.04
144 144 0.91
145 9 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (145 bp):
TCCAAACATAGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGTTCCTAAACATGGCCTTA
CACTAGCTCTCATATCAATGCCAATGCCATGTCCCAGACATGGTATTACACTAGCGCACATTACA
ATGCCGATGCCATGT
Found at i:79518750 original size:48 final size:47
Alignment explanation
Indices: 79518473--79518770 Score: 289
Period size: 48 Copynumber: 6.2 Consensus size: 47
79518463 TGTCGAGGCT
* * *
79518473 GATGCCATGTCCTAGACATGGCCTTACACTAGCTCTC-TTCTCAATGCC
1 GATGCCATGTCC-AGACATGGTCTTACACTAGCTCTCATT-ACATTGCC
* * * *
79518521 GATGCCATGTCCCAGACATGGTATTACACTAGCGCACA-TATCAATGCC
1 GATGCCATGT-CCAGACATGGTCTTACACTAGCTCTCATTA-CATTGCC
* *
79518569 GATGCCATGTCCTAGACATAGTCTTACACTGGCTCTCATTACATTGCC
1 GATGCCATGTCC-AGACATGGTCTTACACTAGCTCTCATTACATTGCC
* * * *
79518617 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-TATCGTGGCC
1 GATGCCATG-TCCAGACATGGTCTTACACTAGCTCTCATTA-CATTGCC
* * * *
79518665 AATGCCATGTCTCGGACATGGTCTTAGACTAGCTCTCATTACATTGTC
1 GATGCCATGTC-CAGACATGGTCTTACACTAGCTCTCATTACATTGCC
* * *
79518713 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-TATCATGGCC
1 GATGCCATG-TCCAGACATGGTCTTACACTAGCTCTCATTA-CATTGCC
*
79518761 AATGCCATGT
1 GATGCCATGT
79518771 AACACCCCGT
Statistics
Matches: 208, Mismatches: 31, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
47 9 0.04
48 188 0.90
49 11 0.05
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCAGACATGGTCTTACACTAGCTCTCATTACATTGCC
Found at i:79520211 original size:40 final size:40
Alignment explanation
Indices: 79520141--79520308 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
79520131 CGGGGTTTAG
** * * **
79520141 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTTTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
* * *
79520180 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
** **
79520220 CCGGATATAGTTGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGA-CTTAAC
* * * *
79520260 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGACTTAAC
79520301 CCGGATAT
1 CCGGATAT
79520309 CATTCAAGTA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 18 0.17
40 58 0.55
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
Found at i:79520291 original size:41 final size:40
Alignment explanation
Indices: 79520164--79520308 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
79520154 CTCGCACAAG
** * * * *
79520164 GCCTTCGGGTTTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
79520204 GCCTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
79520244 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
79520285 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
79520309 CATTCAAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:79528684 original size:48 final size:49
Alignment explanation
Indices: 79528613--79528746 Score: 157
Period size: 48 Copynumber: 2.8 Consensus size: 49
79528603 GGGCTGTTAC
* * * * * * *
79528613 ATGCCATATCCCATATATTGTCTTACACTAGCTCTCATTA-CATTG-TCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATTATCGTGGCT-G
*
79528661 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-TATCGTGGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATTATCGTGGCTG
*
79528709 ATGCCATGTCCCAAACATGGTCTTACACTGGCGCTCAT
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT
79528747 ATTACCCAAG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.03
48 70 0.96
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.32
Consensus pattern (49 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATTATCGTGGCTG
Found at i:79532408 original size:21 final size:21
Alignment explanation
Indices: 79532384--79532427 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
79532374 ACAATTTGAG
*
79532384 CACACGGGCATGTAGAGTAGC
1 CACACGGACATGTAGAGTAGC
* *
79532405 CACACGGACATGTGGGGTAGC
1 CACACGGACATGTAGAGTAGC
79532426 CA
1 CA
79532428 TGCAACCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.25, G:0.34, T:0.14
Consensus pattern (21 bp):
CACACGGACATGTAGAGTAGC
Found at i:79552186 original size:12 final size:12
Alignment explanation
Indices: 79552169--79552198 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
79552159 CCGCATTTTA
79552169 GACTTCGAGCAG
1 GACTTCGAGCAG
79552181 GACTTCGAGCAG
1 GACTTCGAGCAG
79552193 GACTTC
1 GACTTC
79552199 TTCTTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (12 bp):
GACTTCGAGCAG
Found at i:79552543 original size:49 final size:49
Alignment explanation
Indices: 79552490--79552591 Score: 177
Period size: 49 Copynumber: 2.1 Consensus size: 49
79552480 TTAATATATG
*
79552490 TTAGTACATTTAGGTTTATTTTTTCCTTATTGCACTCTCCTTTGTTTAC
1 TTAGTACATTTAGGTTTATTTTCTCCTTATTGCACTCTCCTTTGTTTAC
* *
79552539 TTAGTACATTTATGTTTATTTTCTCCTTATTGCACTCTCTTTTGTTTAC
1 TTAGTACATTTAGGTTTATTTTCTCCTTATTGCACTCTCCTTTGTTTAC
79552588 TTAG
1 TTAG
79552592 GGTGGGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.17, C:0.18, G:0.10, T:0.56
Consensus pattern (49 bp):
TTAGTACATTTAGGTTTATTTTCTCCTTATTGCACTCTCCTTTGTTTAC
Found at i:79554972 original size:42 final size:42
Alignment explanation
Indices: 79554859--79555015 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
79554849 AGTATCGTAC
* * **
79554859 CAATGTCATATCCCAGATATGGTCTTACATGTAA-TCTCGCAT
1 CAATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATAT
** * * * *
79554901 TGATGCTAATAGCCCAGCTATGGTCTTACACGAAGTCTTATAT
1 CAATGC-CATATCCCAGATATGGTCTTACACGAAGTCTCATAT
* *
79554944 CAATGTCATATCCCATATATGGTCTTACACGAAGTCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATAT
79554986 CAATGCCATATCCCAGATATGGTCTTACAC
1 CAATGCCATATCCCAGATATGGTCTTACAC
79555016 ATAATCTCAG
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
42 64 0.69
43 29 0.31
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATAT
Found at i:79559357 original size:343 final size:344
Alignment explanation
Indices: 79558334--79559367 Score: 2016
Period size: 344 Copynumber: 3.0 Consensus size: 344
79558324 ATAAAAGCCG
79558334 AAATCCCGAAAGTTGTTCCTTGTGCCGATTTCTTCTAGCCAAAATCCTCCTATTTTCTTCATCTC
1 AAATCCCGAAAGTTGTTCCTTGTGCCGATTTCTTCTAGCCAAAATCCTCCTATTTTCTTCATCTC
* *
79558399 TTTTGGCTGACTTTTACATCCTCTAAACCTCAACCCCTGTCGGTAATACCACTACAAAACCACCA
66 TTTTGGCCGACTTTCACATCCTCTAAACCTCAACCCCTGTCGGTAATACCACTACAAAACCACCA
79558464 TACCAAATCATCTTCCTCTTCACAATTCCAAAAGCCGAAAACACCATAGTTTTTACGGACATATA
131 TACCAAATCATCTTCCTCTTCACAATTCCAAAAGCCGAAAACACCATAGTTTTTACGGACATATA
79558529 GCCAAATCTTTAGATCTCTAAGATTCGATTTCTGCTAGTGTTTAAGGGTTGGATCTGCATCAGAT
196 GCCAAATCTTTAGATCTCTAAGATTCGATTTCTGCTAGTGTTTAAGGGTTGGATCTGCATCAGAT
79558594 CTATGAAGAAACTGAAGTGGAATCGTTTTGGTTGAAAGAACCTGTGGTAGGTACTCAGATCTATT
261 CTATGAAGAAACTGAAGTGGAATCGTTTTGGTTGAAAGAACCTGTGGTAGGTACTCAGATCTATT
79558659 CTTTATTTCGGGTTTTAGA
326 CTTTATTTCGGGTTTTAGA
*
79558678 AAATCCCGAAAGTTGTTCCTTGTGTCGATTTCTTCTAGCCAAAATCCTCCTATTTTCTTCATCTC
1 AAATCCCGAAAGTTGTTCCTTGTGCCGATTTCTTCTAGCCAAAATCCTCCTATTTTCTTCATCTC
79558743 TTTTGGCCGACTTTCACATCCTCTAAACCTCAACCCCTGTCGGTAATACCACTACAAAACCACCA
66 TTTTGGCCGACTTTCACATCCTCTAAACCTCAACCCCTGTCGGTAATACCACTACAAAACCACCA
79558808 TACCAAATCATCTTCCTCTTCACAATTCCAAAAGCCGAAAACACCATAGTTTTTACGGACATATA
131 TACCAAATCATCTTCCTCTTCACAATTCCAAAAGCCGAAAACACCATAGTTTTTACGGACATATA
79558873 GCCAAATCTTTAGATCTCTAAGATTCGATTTCTGCTAGTGTTTAAGGGTTGGATCTGCATCAGAT
196 GCCAAATCTTTAGATCTCTAAGATTCGATTTCTGCTAGTGTTTAAGGGTTGGATCTGCATCAGAT
79558938 CTATGAAGAAACTGAAGTGGAATCGTTTTGGTTGAAAGAACCTGTGGTAGGTACTCAGATCTATT
261 CTATGAAGAAACTGAAGTGGAATCGTTTTGGTTGAAAGAACCTGTGGTAGGTACTCAGATCTATT
79559003 CTTTATTTCGGGTTTTAGA
326 CTTTATTTCGGGTTTTAGA
*
79559022 AAATCTCGAAAGTTGTTCCTTGTGCCGATTTCTTCTAGCCAAAATCCTCCTA-TTTCTTCATCTC
1 AAATCCCGAAAGTTGTTCCTTGTGCCGATTTCTTCTAGCCAAAATCCTCCTATTTTCTTCATCTC
79559086 TTTTGGCCGACTTTCACATCCTCTAAACCTCAACCCCTGTCGGTAATACCACTACAAAACCACCA
66 TTTTGGCCGACTTTCACATCCTCTAAACCTCAACCCCTGTCGGTAATACCACTACAAAACCACCA
79559151 TACCAAATCATCTTCCTCTTCACAATTCCAAAAGCCGAAAACACCATAGTTTTTACGGACATATA
131 TACCAAATCATCTTCCTCTTCACAATTCCAAAAGCCGAAAACACCATAGTTTTTACGGACATATA
79559216 GCCAAATCTTTAGATCTCTAAGATTCGATTTCTGCTAGTGTTTAAGGGTTGGATCTGCATCAGAT
196 GCCAAATCTTTAGATCTCTAAGATTCGATTTCTGCTAGTGTTTAAGGGTTGGATCTGCATCAGAT
*
79559281 CTATGAAGAAACTGAAGTGGAATCATTTTGGTTGAAAGAACCTGTGGTAGGTACTCAGATCTATT
261 CTATGAAGAAACTGAAGTGGAATCGTTTTGGTTGAAAGAACCTGTGGTAGGTACTCAGATCTATT
79559346 CTTTATTTCGGGTTTTAGA
326 CTTTATTTCGGGTTTTAGA
79559365 AAA
1 AAA
79559368 GCCAAAATCC
Statistics
Matches: 684, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
343 293 0.43
344 391 0.57
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (344 bp):
AAATCCCGAAAGTTGTTCCTTGTGCCGATTTCTTCTAGCCAAAATCCTCCTATTTTCTTCATCTC
TTTTGGCCGACTTTCACATCCTCTAAACCTCAACCCCTGTCGGTAATACCACTACAAAACCACCA
TACCAAATCATCTTCCTCTTCACAATTCCAAAAGCCGAAAACACCATAGTTTTTACGGACATATA
GCCAAATCTTTAGATCTCTAAGATTCGATTTCTGCTAGTGTTTAAGGGTTGGATCTGCATCAGAT
CTATGAAGAAACTGAAGTGGAATCGTTTTGGTTGAAAGAACCTGTGGTAGGTACTCAGATCTATT
CTTTATTTCGGGTTTTAGA
Found at i:79564476 original size:20 final size:20
Alignment explanation
Indices: 79564447--79564490 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
79564437 TGTTTTGTTG
79564447 TGGG-CCAACTGTATTAAAA
1 TGGGCCCAACTGTATTAAAA
* * *
79564466 TGGGCCCAACTTTGTTAATA
1 TGGGCCCAACTGTATTAAAA
79564486 TGGGC
1 TGGGC
79564491 AAGGCCTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (20 bp):
TGGGCCCAACTGTATTAAAA
Found at i:79564628 original size:61 final size:61
Alignment explanation
Indices: 79564512--79564654 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 61
79564502 TATCTCGACT
*
79564512 TGTAATAGGGCTACGGCCCAGATTGATACTGACATAGGCTAGGCCCAATATACTCTGATAC
1 TGTAATAGGGCTACGGCCCAGATTAATACTGACATAGGCTAGGCCCAATATACTCTGATAC
* * * * *
79564573 TGTAAT-GGGCTATGGCCCAGATTAATATTGATAT-GAGCTAAGGCCCAGT-TAACTCTGATTTC
1 TGTAATAGGGCTACGGCCCAGATTAATACTGACATAG-GCT-AGGCCCAATAT-ACTCTGA-TAC
79564635 TG-AATAGGGCTTA-GGCCCAG
1 TGTAATAGGGC-TACGGCCCAG
79564655 TAAAGCTTGA
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
59 1 0.01
60 28 0.40
61 24 0.34
62 15 0.21
63 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (61 bp):
TGTAATAGGGCTACGGCCCAGATTAATACTGACATAGGCTAGGCCCAATATACTCTGATAC
Found at i:79566324 original size:53 final size:53
Alignment explanation
Indices: 79566239--79566340 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
79566229 CCTCCTTTAC
* * *
79566239 CGTGGTATTTCCCTCTTTGAGGGTTTTTCACGTAAAATATTTGTGTTCAATAT
1 CGTGGTATTTCCCTATTTGAGGATTTTGCACGTAAAATATTTGTGTTCAATAT
* *
79566292 CGTGGTTTTTCCTTATTTGAGGATTTTGCACGTAAAATATTTGTGTTCA
1 CGTGGTATTTCCCTATTTGAGGATTTTGCACGTAAAATATTTGTGTTCA
79566341 TACTTCACTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.46
Consensus pattern (53 bp):
CGTGGTATTTCCCTATTTGAGGATTTTGCACGTAAAATATTTGTGTTCAATAT
Found at i:79573405 original size:10 final size:10
Alignment explanation
Indices: 79573390--79573422 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
79573380 TTTTAAAAAT
*
79573390 ATTTTTTATA
1 ATTTTTTAAA
79573400 ATTTTTTAAA
1 ATTTTTTAAA
79573410 A-TTTTTAAA
1 ATTTTTTAAA
79573419 ATTT
1 ATTT
79573423 AAAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:79580716 original size:49 final size:50
Alignment explanation
Indices: 79580652--79580784 Score: 139
Period size: 50 Copynumber: 2.7 Consensus size: 50
79580642 TCCATCAAGT
* * *
79580652 CGATGCCATGGCCCAGACATAGTCTTACATTGACTATTGA-A-ATCGAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACATTGACT-CTGACATATC-AGTGC
** *
79580701 CGATGCCATGTCCCAGATTTGGTCTTACACT-AGCTCTGACATATCAGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACATTGA-CTCTGACATATCAGTGC
* *
79580751 CGATGCCATGTCCCAAACATGGTTTTACATTGAC
1 CGATGCCATGTCCCAGACATGGTCTTACATTGAC
79580785 ACATTTAGTA
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
48 4 0.06
49 31 0.46
50 32 0.47
51 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACATTGACTCTGACATATCAGTGC
Found at i:79583046 original size:41 final size:41
Alignment explanation
Indices: 79582973--79583356 Score: 527
Period size: 41 Copynumber: 9.4 Consensus size: 41
79582963 CGTTCTAGAA
*
79582973 AAAACGCCGCT-AAAACCAGAGCATTAGCGGCGCTTTTCAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * *
79583013 AAAACGCCGCTAAAAACTAGAGCATTAGAGGCGCTTTTCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* *
79583054 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTCTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * *
79583095 AAAACGCCGCCAAAAACTAGAGCATTAGCGGCGCTTTTCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* ** * *
79583136 AAAACGCCGCAAAAAACCAGAGCATTAGCTTCGTTTTTCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
*
79583177 AAAACGCCGCAAAAAACCAGAGCATTAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * * *
79583218 AAAAAGCCGCTAAACACCAAAGCATCAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * *
79583259 AAAACGCCGCTAAATACCAGAGTATCAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
* * *
79583300 AAAACGCTGCTAAACACCAGAGCATCAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
*
79583341 AAAACGCCACTAAAAA
1 AAAACGCCGCTAAAAA
79583357 TCTCATAACC
Statistics
Matches: 307, Mismatches: 36, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
40 11 0.04
41 296 0.96
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
Found at i:79583535 original size:14 final size:14
Alignment explanation
Indices: 79583513--79583552 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
79583503 TTAATTATCA
* *
79583513 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
79583527 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
79583541 ATATGGTTTAAG
1 TTATGGTTTAAG
79583553 CATGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:79584502 original size:24 final size:24
Alignment explanation
Indices: 79584452--79584502 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
79584442 TATATGAGAT
* * *
79584452 AAATATATATAAAATATTATTTTA
1 AAATATATATAAAATATCATATGA
79584476 AAATATATAT-AAATATACATATGA
1 AAATATATATAAAATAT-CATATGA
79584500 AAA
1 AAA
79584503 GTGGTTAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATATAAAATATCATATGA
Found at i:79585492 original size:18 final size:17
Alignment explanation
Indices: 79585471--79585513 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
79585461 ATGATCTTAA
79585471 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
79585489 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
79585506 TCGATGAT
1 T-GATGAT
79585514 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:79586026 original size:61 final size:60
Alignment explanation
Indices: 79585959--79586076 Score: 218
Period size: 61 Copynumber: 1.9 Consensus size: 60
79585949 CCAAAATTTG
*
79585959 ATTTCTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAAATGGAAAATTC
1 ATTTCTTTTTGTCAGTTTTATGTCGGTTGTTTGGAT-TTTTTGTTCTGAAATGGAAAATTC
79586020 ATTTCTTTTTGTCAGTTTTATGTCGGTTGTTTGGATTTTTTGTTCTGAAATGGAAAA
1 ATTTCTTTTTGTCAGTTTTATGTCGGTTGTTTGGATTTTTTGTTCTGAAATGGAAAA
79586077 ACTAGTTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 21 0.38
61 35 0.62
ACGTcount: A:0.19, C:0.08, G:0.19, T:0.53
Consensus pattern (60 bp):
ATTTCTTTTTGTCAGTTTTATGTCGGTTGTTTGGATTTTTTGTTCTGAAATGGAAAATTC
Found at i:79586787 original size:15 final size:15
Alignment explanation
Indices: 79586767--79586798 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
79586757 AAACATATAA
79586767 TCCAAATATTCACTG
1 TCCAAATATTCACTG
79586782 TCCAAATATTCACTG
1 TCCAAATATTCACTG
79586797 TC
1 TC
79586799 AAAACATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (15 bp):
TCCAAATATTCACTG
Found at i:79588220 original size:27 final size:27
Alignment explanation
Indices: 79588190--79588367 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
79588180 ATATTGAGTC
* * * *
79588190 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
79588217 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
79588244 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
79588272 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
79588299 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
79588326 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
79588353 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
79588368 GTACAATTTT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:79588329 original size:82 final size:81
Alignment explanation
Indices: 79588211--79588366 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
79588201 TGCTATATAA
* *
79588211 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
79588276 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
79588293 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
79588357 CACTTAGTGC
65 CACTTAGTGC
79588367 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:79596315 original size:27 final size:27
Alignment explanation
Indices: 79596285--79596462 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
79596275 ATATTGAGTC
* *
79596285 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
79596312 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
79596339 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
79596367 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
79596394 CGCACGCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
79596421 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
79596448 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
79596463 GTACAATTTT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:79598977 original size:290 final size:290
Alignment explanation
Indices: 79598457--79599755 Score: 2499
Period size: 290 Copynumber: 4.5 Consensus size: 290
79598447 CCAACGTTAT
79598457 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
79598522 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
79598587 AAAGACTTGAAAAATGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
79598652 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
196 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
79598717 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTTGATTTTAATA
79598747 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
79598812 GCAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
* *
79598877 AAAGACTTGAAAAATGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTCATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
79598942 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
196 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
79599007 TTCTTTATATTAATAATGTTTGATTTTAATA
261 TT-TTTATATTAATAATGTTTGATTTTAATA
79599038 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
79599103 GCAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
79599168 AAAGACTTGAAAAAAGTTCTATCGAGCTAATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
*
79599233 TCCAATTTACTTATAAAAATTAAACTACGATTATTTTTTGATATTATTATATTCAAATTACTATT
196 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
79599298 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTTGATTTTAATA
79599328 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
79599393 GCAAGATATAACAGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
79599458 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTTAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
79599523 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
196 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
79599588 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTTGATTTTAATA
*
79599618 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAAGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
79599683 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
79599748 AAAGACTT
131 AAAGACTT
79599756 TTTATCACAA
Statistics
Matches: 995, Mismatches: 13, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
290 709 0.71
291 286 0.29
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (290 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
TTTTTATATTAATAATGTTTGATTTTAATA
Found at i:79599560 original size:581 final size:580
Alignment explanation
Indices: 79598457--79599755 Score: 2508
Period size: 581 Copynumber: 2.2 Consensus size: 580
79598447 CCAACGTTAT
79598457 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
79598522 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
* *
79598587 AAAGACTTGAAAAATGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTAATTTACTATTGAATATTTATATAACATTAATTTATT
*
79598652 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
196 TCCAATTTACTTATAAAAATTAAACTACGATTATTTTTTGATATTATTATATTCAAATTACTATT
79598717 TTTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
261 TTTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
*
79598782 GAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAACGGATCCTCCCTAGGTGTAACAAC
326 GAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAACAGATCCTCCCTAGGTGTAACAAC
*
79598847 GCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAATGTTCTATCGAGCTCATTTAC
391 GCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC
79598912 TATTGAATATTTATATAACATTAATTCATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
456 TATTGAATATTTATATAACATTAATTCATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
79598977 TTTTGATATTATTATATTCAAATTACTATTTTCTTTATATTAATAATGTTTGATTTTAATA
521 TTTTGATATTATTATATTCAAATTACTATTTT-TTTATATTAATAATGTTTGATTTTAATA
79599038 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
79599103 GCAAGATATAACGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
79599168 AAAGACTTGAAAAAAGTTCTATCGAGCTAATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTAATTTACTATTGAATATTTATATAACATTAATTTATT
79599233 TCCAATTTACTTATAAAAATTAAACTACGATTATTTTTTGATATTATTATATTCAAATTACTATT
196 TCCAATTTACTTATAAAAATTAAACTACGATTATTTTTTGATATTATTATATTCAAATTACTATT
79599298 TTTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
261 TTTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
79599363 GAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAACAGATCCTCCCTAGGTGTAACAAC
326 GAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAACAGATCCTCCCTAGGTGTAACAAC
79599428 GCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC
391 GCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC
* *
79599493 TATTTAATATTTATATAACATTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
456 TATTGAATATTTATATAACATTAATTCATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
79599558 TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATA
521 TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATA
*
79599618 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAAGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
79599683 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
79599748 AAAGACTT
131 AAAGACTT
79599756 TTTATCACAA
Statistics
Matches: 708, Mismatches: 10, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
580 164 0.23
581 544 0.77
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (580 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTAATTTACTATTGAATATTTATATAACATTAATTTATT
TCCAATTTACTTATAAAAATTAAACTACGATTATTTTTTGATATTATTATATTCAAATTACTATT
TTTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
GAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAACAGATCCTCCCTAGGTGTAACAAC
GCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC
TATTGAATATTTATATAACATTAATTCATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATA
Found at i:79600004 original size:15 final size:15
Alignment explanation
Indices: 79599960--79600015 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
79599950 AACGACATGT
*
79599960 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
79599976 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
79599989 ATATTATTTAATTAA
1 ATATTATTTAATTAA
79600004 ATATTATTTAAT
1 ATATTATTTAAT
79600016 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:79600160 original size:9 final size:9
Alignment explanation
Indices: 79600121--79600270 Score: 148
Period size: 9 Copynumber: 17.2 Consensus size: 9
79600111 ATTTGATATC
*
79600121 ATAATTTAT
1 ATAACTTAT
*
79600130 ATAACTTAC
1 ATAACTTAT
* * *
79600139 AAAACGTAC
1 ATAACTTAT
79600148 ATAACTTAT
1 ATAACTTAT
*
79600157 ATAACTTAG
1 ATAACTTAT
*
79600166 ATAA-ATAT
1 ATAACTTAT
79600174 ATAACTTAT
1 ATAACTTAT
*
79600183 ATAACTTAC
1 ATAACTTAT
79600192 ATAACTTAT
1 ATAACTTAT
79600201 ATAAC--AT
1 ATAACTTAT
* *
79600208 A-CA-TTAC
1 ATAACTTAT
79600215 ATAACTTAT
1 ATAACTTAT
*
79600224 ATAACTTAC
1 ATAACTTAT
*
79600233 ATAACTTAC
1 ATAACTTAT
79600242 ATAACTTAT
1 ATAACTTAT
*
79600251 ATAACTTAC
1 ATAACTTAT
79600260 ATAACTTAT
1 ATAACTTAT
79600269 AT
1 AT
79600271 GTTGTCAACT
Statistics
Matches: 115, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
6 1 0.01
7 5 0.04
8 7 0.06
9 102 0.89
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (9 bp):
ATAACTTAT
Found at i:79600176 original size:17 final size:17
Alignment explanation
Indices: 79600154--79600186 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
79600144 GTACATAACT
79600154 TATATAACTTAGATAAA
1 TATATAACTTAGATAAA
*
79600171 TATATAACTTATATAA
1 TATATAACTTAGATAA
79600187 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
TATATAACTTAGATAAA
Found at i:79600263 original size:27 final size:27
Alignment explanation
Indices: 79600126--79600267 Score: 177
Period size: 27 Copynumber: 5.4 Consensus size: 27
79600116 ATATCATAAT
* * *
79600126 TTATATAACTTACAAAACGTACATAAC
1 TTATATAACTTACATAACTTATATAAC
* *
79600153 TTATATAACTTAGATAA-ATATATAAC
1 TTATATAACTTACATAACTTATATAAC
79600179 TTATATAACTTACATAACTTATATAAC
1 TTATATAACTTACATAACTTATATAAC
*
79600206 --ATA-CA-TTACATAACTTATATAAC
1 TTATATAACTTACATAACTTATATAAC
*
79600229 TTACATAACTTACATAACTTATATAAC
1 TTATATAACTTACATAACTTATATAAC
*
79600256 TTACATAACTTA
1 TTATATAACTTA
79600268 TATGTTGTCA
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.18
24 1 0.01
25 5 0.05
26 24 0.24
27 53 0.52
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.37
Consensus pattern (27 bp):
TTATATAACTTACATAACTTATATAAC
Found at i:79606162 original size:42 final size:43
Alignment explanation
Indices: 79606116--79606216 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
79606106 ATCTGTCAAA
79606116 TTTAGCGGCG-TTTGT-AAAAAAACGCCGCTAAAAGCCTTAACC
1 TTTAGCGGCGCTTT-TCAAAAAAACGCCGCTAAAAGCCTTAACC
** * * *
79606158 TTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAAGCCTTGACC
1 TTTAGCGGCGCTTTTCAAAAAAACGCCGCTAAAAGCCTTAACC
79606201 TTTAGCGGCGCTTTTC
1 TTTAGCGGCGCTTTTC
79606217 CGACAAACGC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 11 0.21
43 41 0.79
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCAAAAAAACGCCGCTAAAAGCCTTAACC
Found at i:79606188 original size:43 final size:43
Alignment explanation
Indices: 79606135--79606227 Score: 159
Period size: 43 Copynumber: 2.2 Consensus size: 43
79606125 GTTTGTAAAA
79606135 AAACGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTCCCAC
* * *
79606178 AAACGTCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCGAC
1 AAACGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTCCCAC
79606221 AAACGCC
1 AAACGCC
79606228 ACAAATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAAGCCTTAACCTTTAGCGGCGCTTTTCCCAC
Found at i:79608280 original size:43 final size:42
Alignment explanation
Indices: 79608219--79608299 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
79608209 TACATCGAAC
* *
79608219 CACACGGTCGAGCCACAC-GCCTGTGTCTCCAGGCTGTGTCCCT
1 CACACGGTCGAGACACACGGCC-GTGTCT-CAGCCTGTGTCCCT
*
79608262 CACACGGTTGAGACACACGGCCGTGTCTCAGCCTGTGT
1 CACACGGTCGAGACACACGGCCGTGTCTCAGCCTGTGT
79608300 GGCCAATACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 9 0.26
43 22 0.65
44 3 0.09
ACGTcount: A:0.16, C:0.36, G:0.27, T:0.21
Consensus pattern (42 bp):
CACACGGTCGAGACACACGGCCGTGTCTCAGCCTGTGTCCCT
Found at i:79612825 original size:12 final size:12
Alignment explanation
Indices: 79612808--79612835 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
79612798 ATTATATTGT
79612808 CCCTTGTATGGG
1 CCCTTGTATGGG
79612820 CCCTTGTATGGG
1 CCCTTGTATGGG
79612832 CCCT
1 CCCT
79612836 CGAGGCCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.32, G:0.29, T:0.32
Consensus pattern (12 bp):
CCCTTGTATGGG
Found at i:79615391 original size:19 final size:19
Alignment explanation
Indices: 79615369--79615405 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
79615359 CTATCTTTTG
79615369 TTTAT-TTTAGTTTATATTT
1 TTTATGTTTAG-TTATATTT
79615388 TTTATGTTTAGTTATATT
1 TTTATGTTTAGTTATATT
79615406 ATTATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (19 bp):
TTTATGTTTAGTTATATTT
Found at i:79616375 original size:25 final size:25
Alignment explanation
Indices: 79616342--79616420 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
79616332 GATTACTTGG
* *
79616342 AAAGACTTTGTGGCT-AATTTTATGA
1 AAAGCCTTTGTGG-TGAATTATATGA
*
79616367 AAAGCCTTTGTGGTGTATTATATGA
1 AAAGCCTTTGTGGTGAATTATATGA
* *
79616392 AAAGCCTTTGTGGTGTATTGTATGA
1 AAAGCCTTTGTGGTGAATTATATGA
79616417 AAAG
1 AAAG
79616421 ACTGTATGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 48 0.98
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (25 bp):
AAAGCCTTTGTGGTGAATTATATGA
Found at i:79616803 original size:27 final size:27
Alignment explanation
Indices: 79616768--79616820 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
79616758 GAGACTCAGC
*
79616768 CAAAAAGTGGTACCCATAGGAATATTT
1 CAAAAAGTGGTACCCATAAGAATATTT
* *
79616795 CAAAGAGTGGTACCTATAAGAATATT
1 CAAAAAGTGGTACCCATAAGAATATT
79616821 ACCTTAGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (27 bp):
CAAAAAGTGGTACCCATAAGAATATTT
Found at i:79618888 original size:88 final size:87
Alignment explanation
Indices: 79618691--79619007 Score: 392
Period size: 87 Copynumber: 3.5 Consensus size: 87
79618681 CTCAAACTTT
* * *
79618691 TTTTAAAAAAAAGCAATTAAGCCCTTGCTCTTTTTTTTTCTTGCACTCAATTGGGAACATGAACT
1 TTTTCAAAAAAAGCAATTAAGCCC---CTC--TTTTTTT-TTGCACTCAATTGGGTACTTGAA-T
*
79618756 TTCAAAATGCATAAAAAAGGCCCTC-AAAC
59 TTCAAAATGCATAAAAAA-ACCCTCAAAAC
79618785 TTTTTCAAAAAAAGCAATTAA-CCCCTACTTTTTTTTTGCACTCAATTGGGTACTTGAATTGTCA
1 -TTTTCAAAAAAAGCAATTAAGCCCCT-CTTTTTTTTTGCACTCAATTGGGTACTTGAATT-TCA
79618849 AAATGCATAAAAAAACCCTCAAAAC
63 AAATGCATAAAAAAACCCTCAAAAC
* *
79618874 TTTTCAAAAAAAGCAATTAAGCCCC-CCTTTTTTTTGCACTCAATTGGGTACTTGAATTATTAAA
1 TTTTCAAAAAAAGCAATTAAGCCCCTCTTTTTTTTTGCACTCAATTGGGTACTTGAATT-TCAAA
* *
79618938 AGGCATAAAAAAACCCT-AAAATT
65 ATGCATAAAAAAACCCTCAAAA-C
*
79618961 TTTTCAAAAAAAGCAATTAAGCCCCTGC-TTTTTTTTACACTCAATTG
1 TTTTCAAAAAAAGCAATTAAGCCCCT-CTTTTTTTTTGCACTCAATTG
79619008 CCAAAATGAA
Statistics
Matches: 205, Mismatches: 10, Indels: 21
0.87 0.04 0.09
Matches are distributed among these distances:
86 4 0.02
87 77 0.38
88 45 0.22
89 47 0.23
90 7 0.03
91 2 0.01
92 1 0.00
94 3 0.01
95 19 0.09
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (87 bp):
TTTTCAAAAAAAGCAATTAAGCCCCTCTTTTTTTTTGCACTCAATTGGGTACTTGAATTTCAAAA
TGCATAAAAAAACCCTCAAAAC
Found at i:79619198 original size:30 final size:31
Alignment explanation
Indices: 79619151--79619255 Score: 94
Period size: 30 Copynumber: 3.5 Consensus size: 31
79619141 AATAAAAATC
*
79619151 AATAAAAAT-TATAAAAAATTA-CTAAACTTT
1 AATAAAAATATA-AAAAAATTATCTAAAATTT
*
79619181 AATAAAAATATAAAAAAATTATTTAAAATTT
1 AATAAAAATATAAAAAAATTATCTAAAATTT
* * * * *
79619212 ACTAAAAA-ATAGAAAATTTATAT-AAATCGT
1 AATAAAAATATAAAAAAATTATCTAAAAT-TT
79619242 AA-AAAAATATAAAA
1 AATAAAAATATAAAA
79619256 TTTTATAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
29 9 0.15
30 37 0.60
31 16 0.26
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (31 bp):
AATAAAAATATAAAAAAATTATCTAAAATTT
Found at i:79619255 original size:28 final size:29
Alignment explanation
Indices: 79619215--79619284 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
79619205 AAAATTTACT
* * *
79619215 AAAAAATAGAAAA-TTTATATAAATCGTA
1 AAAAAATATAAAATTTTATAAAAATCATA
79619243 AAAAAATATAAAATTTTATAAAAATCATA
1 AAAAAATATAAAATTTTATAAAAATCATA
**
79619272 AAAATTTATAAAA
1 AAAAAATATAAAA
79619285 CGCATCAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (29 bp):
AAAAAATATAAAATTTTATAAAAATCATA
Found at i:79619265 original size:19 final size:20
Alignment explanation
Indices: 79619243--79619284 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
79619233 ATAAATCGTA
*
79619243 AAAAAAT-ATAAAATTTTAT
1 AAAAAATCATAAAAATTTAT
79619262 -AAAAATCATAAAAATTTAT
1 AAAAAATCATAAAAATTTAT
79619281 AAAA
1 AAAA
79619285 CGCATCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 6 0.30
19 11 0.55
20 3 0.15
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATCATAAAAATTTAT
Found at i:79619274 original size:27 final size:27
Alignment explanation
Indices: 79619215--79619276 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
79619205 AAAATTTACT
*
79619215 AAAAAATAGAAAATTTATATAAATCGTA
1 AAAAAATAGAAAATTTATAAAAATCG-A
*
79619243 AAAAAATATAAAATTTTATAAAAATC-A
1 AAAAAATAGAAAA-TTTATAAAAATCGA
*
79619270 TAAAAAT
1 AAAAAAT
79619277 TTATAAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 7 0.23
28 12 0.40
29 11 0.37
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (27 bp):
AAAAAATAGAAAATTTATAAAAATCGA
Found at i:79619294 original size:20 final size:19
Alignment explanation
Indices: 79619250--79619296 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
79619240 GTAAAAAAAT
* *
79619250 ATAAAATTTTATAAAAATC
1 ATAAAAATTTATAAAAAGC
*
79619269 ATAAAAATTTATAAAACGC
1 ATAAAAATTTATAAAAAGC
79619288 ATCAAAAAT
1 AT-AAAAAT
79619297 GCCCTTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAAATTTATAAAAAGC
Found at i:79619585 original size:29 final size:29
Alignment explanation
Indices: 79619533--79619614 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
79619523 TTCTTACGAA
* *
79619533 TTTATAAAATTTTGTATATTTTTTTCTATAT
1 TTTATAAAATTTTATA-ATTTTTTACTAT-T
*
79619564 TTCTAT-ATATTTTATAATTTTTTACTATT
1 TT-TATAAAATTTTATAATTTTTTACTATT
*
79619593 TTTATAAAATTTTACAATTTTT
1 TTTATAAAATTTTATAATTTTT
79619615 ATAATCTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 3 0.07
29 17 0.39
30 11 0.25
31 10 0.23
32 3 0.07
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (29 bp):
TTTATAAAATTTTATAATTTTTTACTATT
Found at i:79619595 original size:19 final size:19
Alignment explanation
Indices: 79619472--79619638 Score: 83
Period size: 19 Copynumber: 8.5 Consensus size: 19
79619462 TGGTATAACA
*
79619472 ATTTTTATAATTATTTTACG
1 ATTTTTATAATT-TTTTACT
*
79619492 AATTTTAT-ATTTCTTTACCT
1 ATTTTTATAATTT-TTTA-CT
* *
79619512 -TTTTTATCATTTTCTTACGA
1 ATTTTTATAATTTT-TTAC-T
* * *
79619532 ATTTATAAAATTTTGTA-T
1 ATTTTTATAATTTTTTACT
* * *
79619550 ATTTTTTTCTATATTTCTA-T
1 ATTTTTAT-AAT-TTTTTACT
79619570 ATATTTTATAATTTTTTACT
1 AT-TTTTATAATTTTTTACT
** *
79619590 ATTTTTATAAAATTTTACA
1 ATTTTTATAATTTTTTACT
*
79619609 ATTTTTATAATCTTTT-CT
1 ATTTTTATAATTTTTTACT
79619627 AATTTTTGATAA
1 -ATTTTT-ATAA
79619639 AAATTAAATA
Statistics
Matches: 112, Mismatches: 23, Indels: 24
0.70 0.14 0.15
Matches are distributed among these distances:
18 7 0.06
19 56 0.50
20 34 0.30
21 15 0.13
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTTATAATTTTTTACT
Found at i:79619624 original size:10 final size:9
Alignment explanation
Indices: 79619573--79619638 Score: 53
Period size: 10 Copynumber: 6.9 Consensus size: 9
79619563 TTTCTATATA
79619573 TTTTATAAT
1 TTTTATAAT
79619582 TTTT-TACTAT
1 TTTTATA--AT
*
79619592 TTTTATAAAA
1 TTTTAT-AAT
*
79619602 TTTTACAAT
1 TTTTATAAT
79619611 TTTTATAAT
1 TTTTATAAT
*
79619620 CTTTTCTAAT
1 -TTTTATAAT
79619630 TTTTGATAA
1 TTTT-ATAA
79619639 AAATTAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
8 2 0.04
9 18 0.40
10 23 0.51
11 1 0.02
12 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Done.