Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 129 of 344
Found at i:43598659 original size:60 final size:60
Alignment explanation
Indices: 43598547--43598662 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
43598537 ACAATTTCAC
* * * *
43598547 TTGGGTCTCAGCCCTTATCAGAATCAATTGGGCCTAGCCAATTTTCAAAATCAGTAATAG
1 TTGGGTCTCAGCCCTTAACAGAATCAAGTGGGCCTAGCCAATGTACAAAATCAGTAATAG
* * *
43598607 TTGGGTCT-AGCCCATTAACAGAATCAGGTGGGCCTAAGCCCA-GTACAGAATCAGTA
1 TTGGGTCTCAGCCC-TTAACAGAATCAAGTGGGCCT-AGCCAATGTACAAAATCAGTA
43598663 TAAGATGTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 5 0.11
60 37 0.79
61 5 0.11
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (60 bp):
TTGGGTCTCAGCCCTTAACAGAATCAAGTGGGCCTAGCCAATGTACAAAATCAGTAATAG
Found at i:43598807 original size:22 final size:22
Alignment explanation
Indices: 43598782--43598834 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
43598772 CTAAGTCAAT
* * *
43598782 AGGACGGCTCAATGTCATAGAC
1 AGGATGGCTCAACGCCATAGAC
*
43598804 AGGATGGCTCAACGCCGTAGAC
1 AGGATGGCTCAACGCCATAGAC
43598826 AGGATGGCT
1 AGGATGGCT
43598835 AAAGGCTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.32, T:0.17
Consensus pattern (22 bp):
AGGATGGCTCAACGCCATAGAC
Found at i:43599114 original size:27 final size:27
Alignment explanation
Indices: 43599084--43599140 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
43599074 ATCGTCATTC
*
43599084 TACCATACAGGGGTATTACGGTAATTT
1 TACCATACAGGGGCATTACGGTAATTT
*
43599111 TACCCTACAGGGGCATTACGGTAATTT
1 TACCATACAGGGGCATTACGGTAATTT
43599138 TAC
1 TAC
43599141 AAACTGGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (27 bp):
TACCATACAGGGGCATTACGGTAATTT
Found at i:43602225 original size:25 final size:23
Alignment explanation
Indices: 43602180--43602257 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 23
43602170 GGCCTAGCCT
*
43602180 CTTTT-AAT-AACTGGGTAAAGC
1 CTTTTCAATAAACTGGGCAAAGC
**
43602201 CTGTTTCGGTAAACTAGGGCAAAGCC
1 CT-TTTCAATAAACT-GGGCAAAG-C
43602227 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACT-GGGCA-AAG-C
43602253 CTTTT
1 CTTTT
43602258 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.04
22 3 0.07
23 1 0.02
24 4 0.09
25 22 0.49
26 13 0.29
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (23 bp):
CTTTTCAATAAACTGGGCAAAGC
Found at i:43602332 original size:20 final size:20
Alignment explanation
Indices: 43602307--43602363 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
43602297 TTATGAATAC
*
43602307 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
43602326 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
43602347 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
43602364 CCATGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:43603122 original size:27 final size:27
Alignment explanation
Indices: 43603060--43603124 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
43603050 CGGCATATTC
43603060 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* * *
43603087 GTCACTTTACCCTACAGGGGCT-TTATG
1 GTCATTTTACCATACAGGGG-TATTACG
*
43603114 GTCTTTTTACC
1 GTCATTTTACC
43603125 TATTTGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:43603208 original size:27 final size:27
Alignment explanation
Indices: 43603178--43603398 Score: 164
Period size: 27 Copynumber: 8.1 Consensus size: 27
43603168 GTAAATCTAC
*
43603178 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
*
43603205 AAACTAATGGTATTTCTA-TAATTTT-T
1 AAACTAAGGGTATTT-TAGTAATTTTGT
*
43603231 AGAAAGTCAAGGGTA-TTTATGTAATTTTGT
1 --AAACT-AAGGGTATTTTA-GTAATTTTGT
* * * **
43603261 AAA-TCAGGGGTATTTTGGTGATTTTAC
1 AAACT-AAGGGTATTTTAGTAATTTTGT
* ** * *
43603288 AAATTAAGGGTATTTCGGTAATTTCGC
1 AAACTAAGGGTATTTTAGTAATTTTGT
* * **
43603315 AAAC-CAGTGGTATTTTGGTAATTTTAC
1 AAACTAAG-GGTATTTTAGTAATTTTGT
* *
43603342 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
*
43603369 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
43603396 AAA
1 AAA
43603399 TCGAGGGTAA
Statistics
Matches: 157, Mismatches: 26, Indels: 22
0.77 0.13 0.11
Matches are distributed among these distances:
26 3 0.02
27 125 0.80
28 15 0.10
29 13 0.08
30 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
AAACTAAGGGTATTTTAGTAATTTTGT
Found at i:43603327 original size:54 final size:54
Alignment explanation
Indices: 43603163--43603393 Score: 241
Period size: 54 Copynumber: 4.2 Consensus size: 54
43603153 TACAAGGGTG
* * * * *
43603163 TTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACTAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTA
* * * ** * *
43603217 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTATGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTGTAAACCAGTGGTA
* * * *
43603273 TTTTGGTGATTTTACAAATTAAGGGTATTTCGGTAATTTCGCAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTA
* *
43603327 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG-GGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACC-AGTGGTA
*
43603381 TTTTAGTAATTTT
1 TTTTGGTAATTTT
43603394 GTAAATCGAG
Statistics
Matches: 144, Mismatches: 28, Indels: 10
0.79 0.15 0.05
Matches are distributed among these distances:
54 91 0.63
55 20 0.14
56 33 0.23
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACCAGTGGTA
Found at i:43603378 original size:81 final size:80
Alignment explanation
Indices: 43603155--43603392 Score: 214
Period size: 81 Copynumber: 2.9 Consensus size: 80
43603145 TTTCATCCTA
* * * * ** *
43603155 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTT
43603220 CTA-TAATTTTTAGAAAG
66 C-AGTAA--TTTAGAAAG
** * ** *
43603237 TCAAGGGTATTTAT-GTAATTTTGTAAA-TCAGGGGTATTTTGGTGATTTTACAAATTAAGGGTA
1 -CAAGGGTATTT-TGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTGTAAACTAAGGGTA
* *
43603300 TTTCGGTAATTTCGCAAA-
63 TTTCAGTAATTTAG-AAAG
* *
43603318 CCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
1 CAAG-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATT
*
43603383 TTAGTAATTT
65 TCAGTAATTT
43603393 TGTAAATCGA
Statistics
Matches: 123, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
80 4 0.03
81 61 0.50
82 5 0.04
83 52 0.42
84 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (80 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTT
CAGTAATTTAGAAAG
Found at i:43603405 original size:27 final size:27
Alignment explanation
Indices: 43603240--43603587 Score: 184
Period size: 27 Copynumber: 12.9 Consensus size: 27
43603230 TAGAAAGTCA
43603240 AGGGTATTTAT-GTAATTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTGTAAATCG
* ** **
43603266 AGGGGTATTTTGGTGATTTTACAAATTA
1 A-GGGTATTTTGGTAATTTTGTAAATCG
* * * *
43603294 AGGGTATTTCGGTAATTTCGCAAA-CC
1 AGGGTATTTTGGTAATTTTGTAAATCG
** *
43603320 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTGTAAATCG
* *
43603347 AGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTATTTTGGTAATTTTGTAAATCG
*
43603375 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * *
43603402 AGGGTAAAATGATAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
**** *
43603429 AGGGTAAAACGGT-ATTTCTGTAAATTG
1 AGGGTATTTTGGTAATTT-TGTAAATCG
*** * *
43603456 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
**** *
43603483 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
**** *
43603510 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
* ** *
43603537 AGGGTACTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTGTAAATCG
** * *
43603564 AGGACATTTTAGTAATTTGGTAAA
1 AGGGTATTTTGGTAATTTTGTAAA
43603588 CTAAAGTATT
Statistics
Matches: 263, Mismatches: 51, Indels: 15
0.80 0.16 0.05
Matches are distributed among these distances:
26 7 0.03
27 249 0.95
28 7 0.03
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTGTAAATCG
Found at i:43603550 original size:81 final size:81
Alignment explanation
Indices: 43603358--43603553 Score: 266
Period size: 81 Copynumber: 2.4 Consensus size: 81
43603348 GGGGTATTTT
* * * * * * * *
43603358 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGATAATTCTGT
1 GGTAATTCTGTAAATCGAGGGTAATTTGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGT
43603423 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * ** *
43603439 GGTATTTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT
1 GGTAATTCTGTAAATCGAGGGTAATTTGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGT
43603504 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
*
43603520 GGTAATTCTGTAAATCGAGGGTACTTTGGTAATT
1 GGTAATTCTGTAAATCGAGGGTAATTTGGTAATT
43603554 TTACAAATTG
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 97 1.00
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (81 bp):
GGTAATTCTGTAAATCGAGGGTAATTTGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGT
AAATCGAGGGTAAAAC
Found at i:43603553 original size:54 final size:54
Alignment explanation
Indices: 43603386--43603542 Score: 260
Period size: 54 Copynumber: 2.9 Consensus size: 54
43603376 GGGTATTTTA
* *
43603386 GTAATTTTGTAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
43603440 GTATTTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
*
43603494 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
43603543 CTTTGGTAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:43603587 original size:81 final size:81
Alignment explanation
Indices: 43603414--43603569 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 81
43603404 GGTAAAATGA
* * *
43603414 TAATTCTGTAAATCGAGGGTAAAACGGTATTTCTGTAAATTGAGGGTAAAATGGTAATTCTATAA
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACAA
** *
43603479 ATCGAGGGTAAAACGG
66 ATCGAGGACAAAACAG
*** *
43603495 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAA
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACAA
*
43603560 ATTGAGGACA
66 ATCGAGGACA
43603570 TTTTAGTAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (81 bp):
TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTACAA
ATCGAGGACAAAACAG
Found at i:43610487 original size:40 final size:40
Alignment explanation
Indices: 43610433--43610642 Score: 237
Period size: 40 Copynumber: 5.2 Consensus size: 40
43610423 CACAAGGCCG
* * **
43610433 TCGGGTCTTAGCCCGG-ATATGGTCGTTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTCACTAGCACAAATGCCT
*
43610473 TCGGGACTTAGCCCGG-ATATAGTAACTCA-CACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTCACT-AGCACAAATGCCT
* * * *
43610513 TCAGGACTTAGCTCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCT
* *
43610553 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCT
* * * *
43610593 TCGGAACTTAGCCCGGAATTAATCGCTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCT
43610633 TCGGGACTTA
1 TCGGGACTTA
43610643 ACCCCGTTAG
Statistics
Matches: 150, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
40 147 0.98
41 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCT
Found at i:43610548 original size:80 final size:80
Alignment explanation
Indices: 43610459--43610642 Score: 273
Period size: 80 Copynumber: 2.3 Consensus size: 80
43610449 ATATGGTCGT
43610459 TAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCACACAAATGCCTTCAGG-ACTT
1 TAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGAACTT
* *
43610522 AGCTCGGAATTAGTAAC
64 AGCCCGGAATTAATAAC
* *
43610539 TCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGAACTTAG
1 TAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGAACTTAG
**
43610604 CCCGGAATTAATCGC
66 CCCGGAATTAATAAC
*
43610619 TAGCACAAATGTCTTCGGGACTTA
1 TAGCACAAATGCCTTCGGGACTTA
43610643 ACCCCGTTAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 2 0.02
80 90 0.96
81 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (80 bp):
TAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGAACTTAG
CCCGGAATTAATAAC
Found at i:43615905 original size:47 final size:47
Alignment explanation
Indices: 43615827--43616423 Score: 1005
Period size: 47 Copynumber: 12.6 Consensus size: 47
43615817 CCCTTCGGGA
* * * * * *
43615827 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43615874 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43615921 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43615968 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43616015 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43616062 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43616111 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43616158 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43616205 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43616252 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43616301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43616348 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43616397 CTTATCACGTATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
43616424 TATTCAAATA
Statistics
Matches: 524, Mismatches: 20, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
47 386 0.74
49 138 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43616136 original size:143 final size:141
Alignment explanation
Indices: 43615827--43616423 Score: 1005
Period size: 143 Copynumber: 4.2 Consensus size: 141
43615817 CCCTTCGGGA
* * * * * * * *
43615827 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
43615892 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
43615957 GGCCATTAGGC
131 GGCCATTAGGC
*
43615968 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
43616033 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
43616098 TCGGCCATTCGGC
129 TCGGCCATTAGGC
*
43616111 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
43616176 TTTCACATTCATCACATCGGCGATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
43616241 GGCCATTAGGC
131 GGCCATTAGGC
*
43616252 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43616317 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
43616382 CATCGGCCGTTAGGC
127 CATCGGCCATTAGGC
*
43616397 CTTATCACGTATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
43616424 TATTCAAATA
Statistics
Matches: 432, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
141 139 0.32
143 247 0.57
145 46 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:43616148 original size:190 final size:190
Alignment explanation
Indices: 43615827--43616423 Score: 1036
Period size: 190 Copynumber: 3.1 Consensus size: 190
43615817 CCCTTCGGGA
* * * * * * * *
43615827 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
43615890 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
43615955 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43616015 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43616080 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
43616145 TCGGCGATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43616205 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43616270 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
43616335 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
131 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43616397 CTTATCACGTATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
43616424 TATTCAAATA
Statistics
Matches: 390, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
188 47 0.12
190 280 0.72
192 63 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43618624 original size:36 final size:36
Alignment explanation
Indices: 43618577--43618655 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
43618567 TGCCCTTTAT
*
43618577 TTTATTAATCCTTACATAATGCACTACCCCAACATG
1 TTTATGAATCCTTACATAATGCACTACCCCAACATG
43618613 TTTATGAATCCTTACATAATGCACTACCCCAACATG
1 TTTATGAATCCTTACATAATGCACTACCCCAACATG
43618649 TTTATGA
1 TTTATGA
43618656 CATGTTTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.34
Consensus pattern (36 bp):
TTTATGAATCCTTACATAATGCACTACCCCAACATG
Found at i:43618719 original size:85 final size:85
Alignment explanation
Indices: 43618613--43618777 Score: 321
Period size: 85 Copynumber: 1.9 Consensus size: 85
43618603 CCCCAACATG
43618613 TTTATGAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACATCT
1 TTTATGAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACATCT
43618678 TGTCCACCCATGCTCTTTAT
66 TGTCCACCCATGCTCTTTAT
*
43618698 TTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACATCT
1 TTTATGAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACATCT
43618763 TGTCCACCCATGCTC
66 TGTCCACCCATGCTC
43618778 ATGGCCGGCC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.37
Consensus pattern (85 bp):
TTTATGAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACATCT
TGTCCACCCATGCTCTTTAT
Found at i:43620369 original size:47 final size:47
Alignment explanation
Indices: 43620318--43620609 Score: 512
Period size: 47 Copynumber: 6.2 Consensus size: 47
43620308 CACTTCCACG
**
43620318 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
43620365 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
43620412 TTTATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
43620459 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
43620506 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
43620553 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
43620600 TTCATCACAT
1 TTCATCACAT
43620610 AGAATCCTAA
Statistics
Matches: 234, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 234 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:43624554 original size:24 final size:24
Alignment explanation
Indices: 43624524--43624570 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
43624514 ATGTATTGGC
43624524 AAATGCCAAAATGCCGAAAAGCCA
1 AAATGCCAAAATGCCGAAAAGCCA
* *
43624548 AAATGCCGAAATGCTGAAAAGCC
1 AAATGCCAAAATGCCGAAAAGCC
43624571 GAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (24 bp):
AAATGCCAAAATGCCGAAAAGCCA
Found at i:43624566 original size:8 final size:8
Alignment explanation
Indices: 43624524--43624574 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
43624514 ATGTATTGGC
*
43624524 AAATGCCA
1 AAATGCCG
43624532 AAATGCCG
1 AAATGCCG
* *
43624540 AAAAGCCA
1 AAATGCCG
43624548 AAATGCCG
1 AAATGCCG
*
43624556 AAATGCTG
1 AAATGCCG
*
43624564 AAAAGCCG
1 AAATGCCG
43624572 AAA
1 AAA
43624575 GTTTGGCTAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.49, C:0.22, G:0.20, T:0.10
Consensus pattern (8 bp):
AAATGCCG
Found at i:43624837 original size:29 final size:28
Alignment explanation
Indices: 43624785--43624908 Score: 131
Period size: 29 Copynumber: 4.4 Consensus size: 28
43624775 GTGAGCTTGA
* *
43624785 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
43624813 ATATAAATGTGATTTGGGCCTAATGGACC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
43624842 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
43624871 ATATGAATATGATTGGGCTTAGTGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
* *
43624899 AGATACATGT
1 ATATAAATGT
43624909 ATGTGAAATT
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
28 31 0.39
29 48 0.61
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:43628251 original size:13 final size:13
Alignment explanation
Indices: 43628233--43628257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43628223 GTATTGATCA
43628233 TGTGTTCACACCT
1 TGTGTTCACACCT
43628246 TGTGTTCACACC
1 TGTGTTCACACC
43628258 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:43630850 original size:27 final size:26
Alignment explanation
Indices: 43630801--43630916 Score: 90
Period size: 27 Copynumber: 4.3 Consensus size: 26
43630791 GGCAAATCAA
*
43630801 TCATTTTA-CCTTACAAGGGTATTACAG
1 TCATTTTACCCTT-C-AGGGTATTTCAG
*
43630828 TCATTTTACCCTTCAGGGATATTTTAG
1 TCATTTTACCCTTCAGGG-TATTTCAG
* **
43630855 TCATTCTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCT-TCAGGGTATTTCAG
* * * *
43630882 TCATCTTACCCTATAAGGGTGTTTCGG
1 TCATTTTACCCT-TCAGGGTATTTCAG
*
43630909 TAATTTTA
1 TCATTTTA
43630917 TCACATAAGG
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.06
27 60 0.83
28 8 0.11
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (26 bp):
TCATTTTACCCTTCAGGGTATTTCAG
Found at i:43630941 original size:27 final size:27
Alignment explanation
Indices: 43630911--43631250 Score: 461
Period size: 27 Copynumber: 12.7 Consensus size: 27
43630901 TGTTTCGGTA
* *
43630911 ATTTTATCACATAAGGGTAAAGTCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
*
43630938 ATTTTATCACATAAGGGCAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
* *
43630965 ATTTTATCACATGAGGGCAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
* * *
43630992 ATTTTATCACATGAGGGCAAAATCGTT
1 ATTTTATCACATAAGGGTAAAATCGTC
* *
43631019 ATTTTATCACATAAGAGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
** * *
43631046 ATTTTATCACATAAGCATAGAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
** *
43631073 ATTTTATCACATAAGGACAACATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
43631100 ATTTTATCACAT-AGGGTAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
*
43631126 ATTTTATCACAT-AGGGTAAAATCGCC
1 ATTTTATCACATAAGGGTAAAATCGTC
*
43631152 ATTTTATCACATAAGGGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCGTC
*
43631179 ATTTTATCACATAAGGGAAAAAGT-GTC
1 ATTTTATCACATAAGGGTAAAA-TCGTC
*
43631206 ATTTTATCACATAAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGTAAAATCGTC
43631233 ATTTTATCACATAAGGGT
1 ATTTTATCACATAAGGGT
43631251 TCAGGTACGC
Statistics
Matches: 283, Mismatches: 27, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
26 49 0.17
27 233 0.82
28 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (27 bp):
ATTTTATCACATAAGGGTAAAATCGTC
Found at i:43641531 original size:20 final size:20
Alignment explanation
Indices: 43641496--43641541 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
43641486 TAAGCTCGGT
*
43641496 TGAGCTCAAACGAGCTAAAA
1 TGAGCTCAAACAAGCTAAAA
* * *
43641516 TGAGCTCAAATAAGCTGAAT
1 TGAGCTCAAACAAGCTAAAA
43641536 TGAGCT
1 TGAGCT
43641542 GGACGGAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAACAAGCTAAAA
Found at i:43649928 original size:13 final size:13
Alignment explanation
Indices: 43649910--43649936 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43649900 TTTGTCATTT
43649910 TAATGAATTAAAA
1 TAATGAATTAAAA
43649923 TAATGAATTAAAA
1 TAATGAATTAAAA
43649936 T
1 T
43649937 GGGAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
TAATGAATTAAAA
Found at i:43650092 original size:12 final size:12
Alignment explanation
Indices: 43650070--43650098 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43650060 ATGCTCTATG
43650070 TATTT-TACCCA
1 TATTTCTACCCA
43650081 TATTTCTACCCA
1 TATTTCTACCCA
43650093 TATTTC
1 TATTTC
43650099 ATGCTAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
TATTTCTACCCA
Found at i:43653864 original size:27 final size:27
Alignment explanation
Indices: 43653834--43653949 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
43653824 GGCAAATCAA
* * *
43653834 TCATTTTACCTTACAAGGGTATTACAG
1 TCATTTTACCCTACGAGGGTATTTCAG
* *
43653861 TCATTTTACCCTTC-AGGGATATTTTAG
1 TCATTTTACCCTACGAGGG-TATTTCAG
* * *
43653888 TCATTCTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTACGAGGGTATTTCAG
* *
43653915 TCATCTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTACGAGGGTATTTCAG
*
43653942 TAATTTTA
1 TCATTTTA
43653950 TCACATAAGG
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
26 4 0.05
27 66 0.90
28 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTACGAGGGTATTTCAG
Found at i:43653960 original size:27 final size:28
Alignment explanation
Indices: 43653938--43654311 Score: 452
Period size: 27 Copynumber: 13.9 Consensus size: 28
43653928 TGAGGGTATT
*
43653938 TCAGTAATTTTATCACATAAGGGTAAAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
* *
43653966 TCA-TCATTTTATCACATAATGGAAAAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
* * * *
43653993 T-TGTCATTTTATCACATGAGGGCAGAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
* *
43654020 TC-GTTATTTTATCACATAAGAGTAAAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
* *
43654047 TCA-TCATTTTATCACATAAGCGTAGAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
* *
43654074 TCA-TCATTTTATCACATAAGGGCAACA
1 TCAGTCATTTTATCACATAAGGGTAAAA
43654101 TC-GTCATTTTATCACAT-AGGGTAAAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
43654127 TC-GTCATTTTATCACATAAGGGTAAAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
*
43654154 TCA-CCATTTTATCACATAAGGGTAAAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
*
43654181 TCA-TCATTTTATCATATAAGGGTAAAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
*
43654208 TC-GTCATTTTATCACATAAGGGCAAAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
* * *
43654235 GCA-TCATTTTAGCACATAAGGGCAAAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
* *
43654262 GCA-TCATTTTGTCACATAAGGGTAAAA
1 TCAGTCATTTTATCACATAAGGGTAAAA
*
43654289 T-TGTCATTTTATCACATAAGGGT
1 TCAGTCATTTTATCACATAAGGGT
43654312 TCACGTACGC
Statistics
Matches: 302, Mismatches: 35, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
26 24 0.08
27 275 0.91
28 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (28 bp):
TCAGTCATTTTATCACATAAGGGTAAAA
Found at i:43654310 original size:81 final size:81
Alignment explanation
Indices: 43653944--43654311 Score: 513
Period size: 81 Copynumber: 4.6 Consensus size: 81
43653934 TATTTCAGTA
* * * **
43653944 ATTTTATCACATAAGGGTAAAATCATCATTTTATCACATAATGGAAAAATTGTCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCATCATTTTATCACA
* * * *
43654009 TGAGGGCAGAATCGTT
66 TAAGGGCAAAATCATC
* * * *
43654025 ATTTTATCACATAAGAGTAAAATCATCATTTTATCACATAAGCGTAGAATCATCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCATCATTTTATCACA
* *
43654090 TAAGGGCAACATCGTC
66 TAAGGGCAAAATCATC
*
43654106 ATTTTATCACAT-AGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCACCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCATCATTTTATCACA
*
43654170 TAAGGGTAAAATCATC
66 TAAGGGCAAAATCATC
* * * *
43654186 ATTTTATCATATAAGGGTAAAATCGTCATTTTATCACATAAGGGCAAAAGCATCATTTTAGCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCATCATTTTATCACA
*
43654251 TAAGGGCAAAAGCATC
66 TAAGGGCAAAATCATC
* *
43654267 ATTTTGTCACATAAGGGTAAAATTGTCATTTTATCACATAAGGGT
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGT
43654312 TCACGTACGC
Statistics
Matches: 256, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 71 0.28
81 185 0.72
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (81 bp):
ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCATCATTTTATCACA
TAAGGGCAAAATCATC
Found at i:43663917 original size:20 final size:20
Alignment explanation
Indices: 43663882--43663927 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
43663872 TAAGCTCGGT
*
43663882 TGAGCTCAAACGAGCTAAAA
1 TGAGCTCAAACAAGCTAAAA
* * *
43663902 TGAGCTCAAATAAGCTGAAT
1 TGAGCTCAAACAAGCTAAAA
43663922 TGAGCT
1 TGAGCT
43663928 GGACGGAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAACAAGCTAAAA
Found at i:43672288 original size:13 final size:13
Alignment explanation
Indices: 43672270--43672296 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43672260 TTTGTCATTT
43672270 TAATGAATTAAAA
1 TAATGAATTAAAA
43672283 TAATGAATTAAAA
1 TAATGAATTAAAA
43672296 T
1 T
43672297 GGGAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
TAATGAATTAAAA
Found at i:43672452 original size:12 final size:12
Alignment explanation
Indices: 43672430--43672458 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
43672420 ATGCTCTATG
43672430 TATTT-TACCCA
1 TATTTCTACCCA
43672441 TATTTCTACCCA
1 TATTTCTACCCA
43672453 TATTTC
1 TATTTC
43672459 ATGCTAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
TATTTCTACCCA
Found at i:43676169 original size:27 final size:27
Alignment explanation
Indices: 43676139--43676252 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 27
43676129 GGCAAATCAA
* *
43676139 TCATTTTACCTTACAAGGGTATTACAG
1 TCATTTTACCTTACGAGGGTATTTCAG
*
43676166 TCATTTTACCCTT-C-AGGGATATTTTAG
1 TCATTTTA-CCTTACGAGGG-TATTTCAG
* * * *
43676193 TCATTCTACCCTATGGGGGTATTTCAG
1 TCATTTTACCTTACGAGGGTATTTCAG
* *
43676220 TCATCTTACC-TATGAGGGTATTTCAG
1 TCATTTTACCTTACGAGGGTATTTCAG
43676246 T-ATTTTA
1 TCATTTTA
43676253 TCACATAAGG
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
25 5 0.07
26 23 0.32
27 37 0.51
28 7 0.10
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (27 bp):
TCATTTTACCTTACGAGGGTATTTCAG
Found at i:43676279 original size:27 final size:27
Alignment explanation
Indices: 43676247--43676612 Score: 477
Period size: 27 Copynumber: 13.7 Consensus size: 27
43676237 GTATTTCAGT
43676247 ATTTTATCACATAAGGGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCATC
* **
43676274 ATTTTATCACATAATGG-AAAATTGTC
1 ATTTTATCACATAAGGGTAAAATCATC
* * * * *
43676300 ATTTTATCACATGAGGGCAGAATCGTT
1 ATTTTATCACATAAGGGTAAAATCATC
*
43676327 ATTTTATCACATAAGAGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCATC
* *
43676354 ATTTTATCACATAAGCGTAGAATCATC
1 ATTTTATCACATAAGGGTAAAATCATC
* * *
43676381 ATTTTATCACATAA-GGCAACATCGTC
1 ATTTTATCACATAAGGGTAAAATCATC
*
43676407 ATTTTATCACAT-AGGGTAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCATC
*
43676433 ATTTTATCACATAAGGGTAAAATCACC
1 ATTTTATCACATAAGGGTAAAATCATC
43676460 ATTTTATCACATAAGGGTAAAATCATC
1 ATTTTATCACATAAGGGTAAAATCATC
* *
43676487 ATTTTATCATATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGTAAAATCATC
* *
43676514 ATTTTATCACATAAGGGCAAAAGCATC
1 ATTTTATCACATAAGGGTAAAATCATC
* * *
43676541 ATTTTAGCACATAAGGGCAAAAGCATC
1 ATTTTATCACATAAGGGTAAAATCATC
* **
43676568 ATTTTGTCACATAAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGTAAAATCATC
43676595 ATTTTATCACATAAGGGT
1 ATTTTATCACATAAGGGT
43676613 TCACGTACGC
Statistics
Matches: 296, Mismatches: 40, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
25 1 0.00
26 63 0.21
27 232 0.78
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (27 bp):
ATTTTATCACATAAGGGTAAAATCATC
Found at i:43689013 original size:44 final size:44
Alignment explanation
Indices: 43688963--43689121 Score: 162
Period size: 44 Copynumber: 3.6 Consensus size: 44
43688953 TATGTGTTAT
*
43688963 CGTGTAATACCACGTCTGGGACATTGGCATCGACTTCTGTTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTTTTA
* ** * * *
43689007 CGTGTAAGACCATGTCTGGGACATTGGTGTCG--TTAATCGATAT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTT-CT-GTTTTA
** *
43689050 CGTGTAAGACCACGTCTGGGATGTTGTCATCGACTTCTGTTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTTTTA
* * *
43689094 CATGTAAGACCATGTTTGGGACATTGGC
1 CGTGTAAGACCACGTCTGGGACATTGGC
43689122 GTCGTTAATC
Statistics
Matches: 88, Mismatches: 22, Indels: 10
0.73 0.18 0.08
Matches are distributed among these distances:
42 2 0.02
43 30 0.34
44 54 0.61
45 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTTTTA
Found at i:43689062 original size:87 final size:87
Alignment explanation
Indices: 43688960--43689147 Score: 304
Period size: 87 Copynumber: 2.2 Consensus size: 87
43688950 TTATATGTGT
* *
43688960 TATCGTGTAATACCACGTCTGGGACATTGGCATCGACTTCTGTTTTACGTGTAAGACCATGTCTG
1 TATCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTTTTACATGTAAGACCATGTCTG
*
43689025 GGACATTGGTGTCGTTAATCGA
66 GGACATTGGCGTCGTTAATCGA
** * *
43689047 TATCGTGTAAGACCACGTCTGGGATGTTGTCATCGACTTCTGTTTTACATGTAAGACCATGTTTG
1 TATCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTTTTACATGTAAGACCATGTCTG
43689112 GGACATTGGCGTCGTTAATCGA
66 GGACATTGGCGTCGTTAATCGA
*
43689134 TTTCGTGTAAGACC
1 TATCGTGTAAGACC
43689148 CTATTTGGGA
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 93 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (87 bp):
TATCGTGTAAGACCACGTCTGGGACATTGGCATCGACTTCTGTTTTACATGTAAGACCATGTCTG
GGACATTGGCGTCGTTAATCGA
Found at i:43689168 original size:87 final size:87
Alignment explanation
Indices: 43688960--43689169 Score: 289
Period size: 87 Copynumber: 2.4 Consensus size: 87
43688950 TTATATGTGT
* * ** *
43688960 TATCGTGTAATACCACGTCTGGGACATTGGCATCGACTTCTGTTTTACGTGTAAGACCATGTCTG
1 TATCGTGTAAGACCACATCTGGGATGTTGGCATCGACTTCTGTTTTACATGTAAGACCATGTCTG
*
43689025 GGACATTGGTGTCGTTAATCGA
66 GGACATTGGCGTCGTTAATCGA
* * *
43689047 TATCGTGTAAGACCACGTCTGGGATGTTGTCATCGACTTCTGTTTTACATGTAAGACCATGTTTG
1 TATCGTGTAAGACCACATCTGGGATGTTGGCATCGACTTCTGTTTTACATGTAAGACCATGTCTG
43689112 GGACATTGGCGTCGTTAATCGA
66 GGACATTGGCGTCGTTAATCGA
* *
43689134 TTTCGTGTAAGACC-CTATTTGGGATAG-TGGCATCGA
1 TATCGTGTAAGACCAC-ATCTGGGAT-GTTGGCATCGA
43689170 TGTTTGATTA
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
86 1 0.01
87 108 0.98
88 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (87 bp):
TATCGTGTAAGACCACATCTGGGATGTTGGCATCGACTTCTGTTTTACATGTAAGACCATGTCTG
GGACATTGGCGTCGTTAATCGA
Found at i:43699592 original size:21 final size:20
Alignment explanation
Indices: 43699562--43699604 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
43699552 TAATATTGGT
* *
43699562 AAGTGGATTAGAAAATAAAAG
1 AAGTGAATTA-AAAAGAAAAG
43699583 AAGTGAATTAAAAAGAAAAG
1 AAGTGAATTAAAAAGAAAAG
43699603 AA
1 AA
43699605 AGGATGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (20 bp):
AAGTGAATTAAAAAGAAAAG
Found at i:43700377 original size:13 final size:13
Alignment explanation
Indices: 43700359--43700383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43700349 TAATGGTATA
43700359 TTGAATCCATGAC
1 TTGAATCCATGAC
43700372 TTGAATCCATGA
1 TTGAATCCATGA
43700384 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:43700961 original size:27 final size:27
Alignment explanation
Indices: 43700930--43701107 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
43700920 TAAATTGTAC
43700930 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
43700957 TGCACTAAGTGTGTGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43700983 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43701011 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43701039 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43701066 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43701093 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43701108 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43701044 original size:82 final size:81
Alignment explanation
Indices: 43700931--43701086 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
43700921 AAATTGTACA
* * *
43700931 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43700995 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43701012 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43701077 TGCGAGTTGA
65 TGCGAATTGA
43701087 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43701098 original size:82 final size:81
Alignment explanation
Indices: 43700927--43701107 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
43700917 GATTAAATTG
* * *
43700927 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43700992 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43701008 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43701072 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43701090 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43701108 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43701118 original size:27 final size:27
Alignment explanation
Indices: 43701012--43701118 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
43701002 TGACCATGCG
* * * *
43701012 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
43701040 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
43701067 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
43701094 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
43701119 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:43707634 original size:21 final size:20
Alignment explanation
Indices: 43707604--43707646 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
43707594 TAATATTGGT
* *
43707604 AAGTGGATTAGAAAATAAAAG
1 AAGTGAATTA-AAAAGAAAAG
43707625 AAGTGAATTAAAAAGAAAAG
1 AAGTGAATTAAAAAGAAAAG
43707645 AA
1 AA
43707647 AGGATGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (20 bp):
AAGTGAATTAAAAAGAAAAG
Found at i:43708811 original size:27 final size:27
Alignment explanation
Indices: 43708780--43708957 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
43708770 TAAATTGTAC
*
43708780 AGCACTAAGTGTACGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43708807 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43708833 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43708861 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43708889 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43708916 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43708943 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43708958 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43708894 original size:82 final size:81
Alignment explanation
Indices: 43708781--43708936 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
43708771 AAATTGTACA
* *
43708781 GCACTAAGTGTACGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43708845 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
43708862 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTACGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43708927 TGCGAGTTGA
65 TGCGAATTGA
43708937 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43708948 original size:82 final size:81
Alignment explanation
Indices: 43708777--43708957 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
43708767 GATTAAATTG
* * *
43708777 TACAGCACTAAGTGTACGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43708842 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43708858 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43708922 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43708940 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43708958 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43708968 original size:27 final size:27
Alignment explanation
Indices: 43708862--43708968 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
43708852 TGACCATGCG
* * * *
43708862 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
43708890 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
43708917 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
43708944 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
43708969 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:43711979 original size:46 final size:46
Alignment explanation
Indices: 43711929--43712104 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43711919 TGGTTGAGCA
43711929 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43711975 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
43712020 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43712068 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43712105 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43712085 original size:93 final size:93
Alignment explanation
Indices: 43711926--43712097 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
43711916 GGATGGTTGA
* *
43711926 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43711991 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
43712019 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43712084 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43712098 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43717817 original size:11 final size:11
Alignment explanation
Indices: 43717801--43717825 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43717791 GATCCATGAA
43717801 ATGGTGAGTTC
1 ATGGTGAGTTC
43717812 ATGGTGAGTTC
1 ATGGTGAGTTC
43717823 ATG
1 ATG
43717826 ATTAGTTGAA
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:0.20, C:0.08, G:0.36, T:0.36
Consensus pattern (11 bp):
ATGGTGAGTTC
Found at i:43724310 original size:27 final size:27
Alignment explanation
Indices: 43724238--43724310 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
43724228 ATTACTGAAA
* *
43724238 TACCTTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTGTAAAATTACCAAAG
* * * *
43724265 TACCCCCAATTTATGAAATTACCCAAA-
1 TACCCTCGATTTGTAAAATTA-CCAAAG
*
43724292 TATCCTCGATTTGTAAAAT
1 TACCCTCGATTTGTAAAAT
43724311 CACTGAAATA
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
27 29 0.85
28 5 0.15
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAG
Found at i:43724545 original size:27 final size:27
Alignment explanation
Indices: 43724323--43724537 Score: 308
Period size: 27 Copynumber: 8.0 Consensus size: 27
43724313 CTGAAATAAG
43724323 ATAGAATTACCATTTTACCCTCGA--T
1 ATAGAATTACCATTTTACCCTCGATTT
* * **
43724348 ACAAAATTACTGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
* * * *
43724375 ACAGAATTACCGTTTTACTCTAGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
43724402 ATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
*
43724429 ATAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
43724456 ATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
*
43724483 ATAGAATAACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
* *
43724510 ATAGAATTACTATTTTATCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
43724537 A
1 A
43724538 CAAAATTATT
Statistics
Matches: 170, Mismatches: 18, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
25 20 0.12
27 150 0.88
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
ATAGAATTACCATTTTACCCTCGATTT
Found at i:43724579 original size:27 final size:26
Alignment explanation
Indices: 43724534--43724637 Score: 82
Period size: 27 Copynumber: 3.9 Consensus size: 26
43724524 TTATCCTCGA
***
43724534 TTTACAAAATTATTGAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCC-TAG
*
43724561 TTTACAAAATTACCAAAATACCCTCG
1 TTTACAAAATTACCAAAATACCCTAG
* * * *
43724587 ATCAGTAAAATTACCAAAATACCCCTGG
1 TTTA-CAAAATTACCAAAATA-CCCTAG
** *
43724615 TTTGTAAAATTACTAAAATACCC
1 TTTACAAAATTACCAAAATACCC
43724638 CTGAATTATA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.11
27 50 0.79
28 6 0.10
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (26 bp):
TTTACAAAATTACCAAAATACCCTAG
Found at i:43724586 original size:54 final size:53
Alignment explanation
Indices: 43724528--43724667 Score: 147
Period size: 54 Copynumber: 2.6 Consensus size: 53
43724518 ACTATTTTAT
* * *
43724528 CCTCGATTTACAAAATTATTGAAATACCCTTAGTTTACAAAATTACCAAAATAC
1 CCTCGA-TTATAAAATTACTGAAATACCCCTAGTTTACAAAATTACCAAAATAC
* ** * ** *
43724582 CCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATAC
1 CCTCGATTA-TAAAATTACTGAAATACCCCTAGTTTACAAAATTACCAAAATAC
43724636 CC-CTGAATTATAAAATTACTGAAATACCCCTA
1 CCTC-G-ATTATAAAATTACTGAAATACCCCTA
43724668 TAGGGTAGAA
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
53 3 0.04
54 63 0.91
55 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (53 bp):
CCTCGATTATAAAATTACTGAAATACCCCTAGTTTACAAAATTACCAAAATAC
Found at i:43724638 original size:27 final size:27
Alignment explanation
Indices: 43724566--43724666 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
43724556 CTTAGTTTAC
* *
43724566 AAAATTACCAAAATA-CCCTCG-ATCAGT
1 AAAATTACTAAAATACCCCT-GAAT-TGT
* **
43724593 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTGAATTGT
*
43724620 AAAATTACTAAAATACCCCTGAATTAT
1 AAAATTACTAAAATACCCCTGAATTGT
*
43724647 AAAATTACTGAAATACCCCT
1 AAAATTACTAAAATACCCCT
43724667 ATAGGGTAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 60 0.92
28 5 0.08
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGAATTGT
Found at i:43724679 original size:27 final size:27
Alignment explanation
Indices: 43724622--43724959 Score: 396
Period size: 27 Copynumber: 12.6 Consensus size: 27
43724612 TGGTTTGTAA
* * *** *
43724622 AATTACTAAAATACCCCTGAATTATAA
1 AATTACTGAAATACCCCTGTAGGGTAG
*
43724649 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
43724676 AATTA-TCGCAATA-CCCTGTAAGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
43724702 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
43724729 AATTACCGGAATACTCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
43724756 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
43724783 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
43724810 AATTAAC-GGAATACCCCTGTAGGGTAG
1 AATT-ACTGAAATACCCCTGTAGGGTAG
*
43724837 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
43724864 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
43724891 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
43724918 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
43724945 AATTACCGAGATACC
1 AATTACTGAAATACC
43724960 TTGTGAGGTA
Statistics
Matches: 270, Mismatches: 34, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
26 24 0.09
27 245 0.91
28 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:43725417 original size:31 final size:31
Alignment explanation
Indices: 43725379--43725457 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
43725369 TTGCATTCAC
* *
43725379 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
*
43725410 ATTCTGATTTTGATTCTGTTACTTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
43725441 ATTCTG-TTTCTGATTCT
1 ATTCTGATTT-TGATTCT
43725458 AGTTCTGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 3 0.07
31 41 0.93
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTA
Found at i:43727476 original size:27 final size:26
Alignment explanation
Indices: 43727445--43727539 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
43727435 TTAGTTTACC
* *
43727445 AAATTACTGAAATACCTTCGACTTGTA
1 AAATTACTCAAATACC-TCGATTTGTA
* *
43727472 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTCAAA-TA-CCTCGATTTGTA
*
43727499 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATA-CCTCGATTTGTA
* *
43727526 AAATCACTAAAATA
1 AAATTACTCAAATA
43727540 AGATAGAATT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
26 3 0.05
27 46 0.84
28 6 0.11
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATTACTCAAATACCTCGATTTGTA
Found at i:43727602 original size:27 final size:27
Alignment explanation
Indices: 43727544--43727791 Score: 311
Period size: 27 Copynumber: 9.3 Consensus size: 27
43727534 AAAATAAGAT
*
43727544 AGAATTACCATTTTACCCTTGA--TAC
1 AGAATTACCATTTTACCCTCGATTTAC
* **
43727569 AAAATTACTGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
43727596 AGAATTACCATTTTACCCTAGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
43727623 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
43727650 AGAAATACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
43727677 AGAATTATCATTTTACCTTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
43727704 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
43727731 AGAATTACCGTTTTACCCTTGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
** *
43727758 AGAATTACTGTTTTATCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
43727785 AAAATTA
1 AGAATTA
43727792 TTGAAATACC
Statistics
Matches: 196, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
25 18 0.09
27 178 0.91
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:43727859 original size:27 final size:27
Alignment explanation
Indices: 43727785--43727885 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
43727775 CTCGATTTAC
* * * * **
43727785 AAAATTATTGAAATACCCTTAGTTTAC
1 AAAATTACTAAAATACCCCTGGTTTGT
*
43727812 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTGGTTTGT
**
43727839 AAAATTACTAAAATACCCCTGAATTGT
1 AAAATTACTAAAATACCCCTGGTTTGT
*
43727866 AAAATTA-TCGAAATACCCCT
1 AAAATTACT-AAAATACCCCT
43727886 ATAAGGTAGA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
26 1 0.02
27 61 0.98
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGGTTTGT
Found at i:43727898 original size:27 final size:27
Alignment explanation
Indices: 43727814--43728124 Score: 376
Period size: 27 Copynumber: 11.6 Consensus size: 27
43727804 TAGTTTACAA
* ** *
43727814 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
** * ** *
43727841 AATTACTAAAATACCCCTGAATTGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
43727868 AATTATCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43727895 AATTATCGCAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43727921 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43727948 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
43727975 AATTATCGTAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43728002 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
43728029 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43728056 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43728083 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43728110 AATTACCGAGATACC
1 AATTACCGAAATACC
43728125 TTGTGAGGTA
Statistics
Matches: 251, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 24 0.10
27 227 0.90
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:43728582 original size:6 final size:6
Alignment explanation
Indices: 43728544--43728622 Score: 56
Period size: 6 Copynumber: 12.8 Consensus size: 6
43728534 TTGCATTCAC
* *
43728544 ATTCTG ATTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
* *
43728593 -TTACCTG ATACTA ATTCTG ATTCTG ATTCT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCT
43728623 AGTTCTAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
5 5 0.09
6 43 0.75
7 6 0.11
8 2 0.04
9 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:43728582 original size:31 final size:31
Alignment explanation
Indices: 43728544--43728622 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
43728534 TTGCATTCAC
* *
43728544 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
43728575 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
*
43728606 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
43728623 AGTTCTAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTA
Found at i:43743662 original size:39 final size:39
Alignment explanation
Indices: 43743614--43743759 Score: 256
Period size: 39 Copynumber: 3.7 Consensus size: 39
43743604 TGCGTGAGAT
43743614 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
43743653 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
43743692 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
43743731 TTATATCCGGGCTAAGTTCCGAGGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
43743760 TGGGTTGGAA
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 102 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:43745461 original size:21 final size:21
Alignment explanation
Indices: 43745437--43745487 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
43745427 CTGTATGTGG
43745437 ATGACATACTTATCATAGGAA
1 ATGACATACTTATCATAGGAA
* *
43745458 ATGACAAACTTATCATGGGAA
1 ATGACATACTTATCATAGGAA
43745479 ATGACATAC
1 ATGACATAC
43745488 CTACCTTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (21 bp):
ATGACATACTTATCATAGGAA
Found at i:43747862 original size:40 final size:40
Alignment explanation
Indices: 43747690--43747855 Score: 255
Period size: 40 Copynumber: 4.2 Consensus size: 40
43747680 AACCCAAGTA
* * *
43747690 CCTTCGGGATTTAG-CCGAATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43747729 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
43747769 GCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43747809 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-AACTCGCACAAATG
43747849 CCTTCGG
1 CCTTCGG
43747856 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 13 0.11
40 102 0.87
41 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43753136 original size:114 final size:113
Alignment explanation
Indices: 43752964--43753191 Score: 357
Period size: 114 Copynumber: 2.0 Consensus size: 113
43752954 CCAAACAGGG
* ** * **
43752964 TCTTACTCGCACATATATATCAGAATCAATATCGATGCCAATGTTTTAAACGTGGTCTTACTCGT
1 TCTTACTCGCACACATATATCAGAATCAATATCGATGCCAACATATTAAACGCAGTCTTACTCGT
* *
43753029 ACACATATATCAGAATCACATATCGATGCCAACGTATTAGACGCGGTC
66 ACACATATATAAGAATCACATATCGATGCCAACGTATTAAACGCGGTC
*
43753077 TCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACATATTAAACGCAGTCTTACTCG
1 TCTTACTCGCACACATATATCAGAATCA-ATATCGATGCCAACATATTAAACGCAGTCTTACTCG
*
43753142 TACACATATATAAGAATCACATATCGATGCCAACGTATTAAACGTGGTC
65 TACACATATATAAGAATCACATATCGATGCCAACGTATTAAACGCGGTC
43753191 T
1 T
43753192 TACTCATGAT
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
113 26 0.25
114 78 0.75
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (113 bp):
TCTTACTCGCACACATATATCAGAATCAATATCGATGCCAACATATTAAACGCAGTCTTACTCGT
ACACATATATAAGAATCACATATCGATGCCAACGTATTAAACGCGGTC
Found at i:43753163 original size:56 final size:56
Alignment explanation
Indices: 43752962--43753196 Score: 355
Period size: 56 Copynumber: 4.2 Consensus size: 56
43752952 TCCCAAACAG
* * * * *
43752962 GGTCTTACTCGCACATATATATCAGAATCA-ATATCGATGCCAATGTTTTAAACGT
1 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGC
*
43753017 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAGACGC
1 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGC
*
43753073 GGTCTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACATATTAAACGC
1 GG--TCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGC
* * *
43753131 AGTCTTACTCGTACACATATATAAGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGC
43753187 GGTCTTACTC
1 GGTCTTACTC
43753197 ATGATCACAA
Statistics
Matches: 164, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
55 28 0.17
56 83 0.51
58 53 0.32
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGC
Found at i:43757212 original size:27 final size:26
Alignment explanation
Indices: 43757156--43757212 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
43757146 CAACCTTAAC
* *
43757156 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
43757182 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
43757209 CCTA
1 CCTA
43757213 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:43757480 original size:17 final size:17
Alignment explanation
Indices: 43757458--43757490 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43757448 TACTTTTGCC
43757458 TATTTTT-TTATATTATA
1 TATTTTTATTAT-TTATA
43757475 TATTTTTATTATTTAT
1 TATTTTTATTATTTAT
43757491 TAACCCGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTTATTATTTATA
Found at i:43758496 original size:15 final size:15
Alignment explanation
Indices: 43758446--43758503 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
43758436 ATGGAGGAAA
*
43758446 AGAAGAAGAGAAAGT
1 AGAAGAAGAGAAAAT
* * *
43758461 AGATGAAGAGAAGAG
1 AGAAGAAGAGAAAAT
* *
43758476 AAAAGAAAAGAAAAT
1 AGAAGAAGAGAAAAT
43758491 AGAAGAAGA-AAAA
1 AGAAGAAGAGAAAA
43758504 AAACTGAATC
Statistics
Matches: 32, Mismatches: 11, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
14 4 0.12
15 28 0.88
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (15 bp):
AGAAGAAGAGAAAAT
Found at i:43759484 original size:15 final size:15
Alignment explanation
Indices: 43759450--43759481 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
43759440 CTTTCCTATC
43759450 TAATAATAATTATTA
1 TAATAATAATTATTA
43759465 TAATAATAATT-TTA
1 TAATAATAATTATTA
43759479 TAA
1 TAA
43759482 ATATATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAATAATTATTA
Found at i:43759601 original size:19 final size:18
Alignment explanation
Indices: 43759564--43759607 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
43759554 ATACATACGG
43759564 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
43759581 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
43759600 TACTAATT
1 TAATAATT
43759608 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:43764086 original size:40 final size:40
Alignment explanation
Indices: 43764035--43764419 Score: 619
Period size: 40 Copynumber: 9.6 Consensus size: 40
43764025 CATTTGAATG
*
43764035 ATATCCGGGCTAAGACCCGAAGGCATTAGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
43764075 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
43764115 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
43764155 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
43764195 ATATCCGGGCTAAGACCAGAAGGCATTAGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
43764235 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
43764275 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
43764315 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
43764355 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
43764395 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
43764420 ATTGAGCTTG
Statistics
Matches: 321, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 318 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:43771740 original size:40 final size:40
Alignment explanation
Indices: 43771689--43772073 Score: 619
Period size: 40 Copynumber: 9.6 Consensus size: 40
43771679 CATTTGAATG
*
43771689 ATATCCGGGCTAAGACCCGAAGGCATTAGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
43771729 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
43771769 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
43771809 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
43771849 ATATCCGGGCTAAGACCAGAAGGCATTAGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
43771889 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
43771929 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
43771969 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
43772009 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
43772049 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
43772074 ATTGAGCTTG
Statistics
Matches: 321, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 318 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:43774656 original size:56 final size:56
Alignment explanation
Indices: 43774454--43774631 Score: 293
Period size: 56 Copynumber: 3.2 Consensus size: 56
43774444 TCCCAAACAG
* * * * *
43774454 GGTCTTACTCGCACATATATATCAGAATCACATATCGATGGCAACATTTTAAACGT
1 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
43774510 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
43774566 GATCTTACTCGTACACATATATCAGAATCACATATCGATGTCAACGTATTAAACGT
1 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
43774622 GGTCTTACTC
1 GGTCTTACTC
43774632 ATGATCACAA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 114 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:43782084 original size:4 final size:4
Alignment explanation
Indices: 43782077--43782115 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
43782067 AATATCAAAA
*
43782077 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AGAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
43782116 AACATTAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:43782432 original size:11 final size:11
Alignment explanation
Indices: 43782403--43782432 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
43782393 TTGATTAATG
*
43782403 AAATATAATAA
1 AAATATATTAA
43782414 AAATATATTAA
1 AAATATATTAA
43782425 AAATATAT
1 AAATATAT
43782433 ATTGAGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATATTAA
Found at i:43785175 original size:22 final size:22
Alignment explanation
Indices: 43785150--43785191 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43785140 CTGAATTTAA
43785150 AATTTATCACACAT-ATTAATCC
1 AATTTATCA-ACATCATTAATCC
*
43785172 AATTTATTAACATCATTAAT
1 AATTTATCAACATCATTAAT
43785192 TTTTTAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTATCAACATCATTAATCC
Found at i:43792184 original size:37 final size:37
Alignment explanation
Indices: 43792134--43792212 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43792124 TTATTACGAA
* *
43792134 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
43792171 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
43792208 GTCTT
1 GTCTT
43792213 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:43792409 original size:47 final size:47
Alignment explanation
Indices: 43792331--43792774 Score: 744
Period size: 47 Copynumber: 9.4 Consensus size: 47
43792321 CCCTTCGGGA
* * * * * * *
43792331 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43792378 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43792425 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43792472 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43792519 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43792566 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43792613 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43792660 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43792709 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43792756 CTTATCACATATATACACT
1 CTTATCACATATATACACT
43792775 GTCTTGGCTG
Statistics
Matches: 378, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 332 0.88
49 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43822255 original size:46 final size:46
Alignment explanation
Indices: 43822187--43822361 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
43822177 TGTAACCTGC
43822187 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * * *
43822233 CCATAAGTGAACTTGGATTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * * * *
43822283 -C-TCA-CGAACTCAGACTCAACTAAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
43822326 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
43822362 CTGCCCAAAT
Statistics
Matches: 100, Mismatches: 20, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 58 0.58
47 22 0.22
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:43822301 original size:93 final size:93
Alignment explanation
Indices: 43822195--43822366 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
43822185 GCCCATAAGT
* * * * * * *
43822195 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTTGGATTCAACTCAA
1 GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43822260 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
43822288 GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
43822353 CGAGTTCGGCTGCC
66 CGAGCTCGGATGCC
43822367 CAAATATCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:43852366 original size:46 final size:46
Alignment explanation
Indices: 43852298--43852472 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
43852288 TGTAACCTGC
43852298 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * * *
43852344 CCATAAGTGAACTTGGATTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * * * *
43852394 -C-TCA-CGAACTCAGACTCAACTAAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
43852437 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
43852473 CTGCCCAAAT
Statistics
Matches: 100, Mismatches: 20, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 58 0.58
47 22 0.22
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:43852414 original size:93 final size:93
Alignment explanation
Indices: 43852306--43852477 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
43852296 GCCCATAAGT
* * * * * * *
43852306 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTTGGATTCAACTCAA
1 GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43852371 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
43852399 GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
43852464 CGAGTTCGGCTGCC
66 CGAGCTCGGATGCC
43852478 CAAATATCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTAAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:43854619 original size:35 final size:35
Alignment explanation
Indices: 43854573--43854645 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
43854563 AGAAATGCAG
43854573 AGTTAATTTAGATGATTTTGAGTGAAGCTCATAAT
1 AGTTAATTTAGATGATTTTGAGTGAAGCTCATAAT
43854608 AGTTAATTTAGATGATTTTGAGTGAAGCTCATAAT
1 AGTTAATTTAGATGATTTTGAGTGAAGCTCATAAT
43854643 AGT
1 AGT
43854646 CGGTTATCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (35 bp):
AGTTAATTTAGATGATTTTGAGTGAAGCTCATAAT
Found at i:43861969 original size:33 final size:33
Alignment explanation
Indices: 43861932--43862001 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
43861922 GAAAGGTAAG
43861932 TATAACAAATCAAAAAGTGTTGGTAAGAATATA
1 TATAACAAATCAAAAAGTGTTGGTAAGAATATA
*
43861965 TATAACAAATCAAAGAGTGTTGGTAAGAATATA
1 TATAACAAATCAAAAAGTGTTGGTAAGAATATA
43861998 TATA
1 TATA
43862002 TGTGTAAGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.29
Consensus pattern (33 bp):
TATAACAAATCAAAAAGTGTTGGTAAGAATATA
Found at i:43875843 original size:11 final size:11
Alignment explanation
Indices: 43875827--43875856 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
43875817 CTTGTTCTCA
43875827 TTGCATATTAT
1 TTGCATATTAT
43875838 TTGCATATTAT
1 TTGCATATTAT
43875849 TTGCATAT
1 TTGCATAT
43875857 GGACTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (11 bp):
TTGCATATTAT
Found at i:43878423 original size:23 final size:25
Alignment explanation
Indices: 43878355--43878424 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
43878345 TCTTCTCTCA
* *
43878355 AGCCATATAACAGGAAGCTCACAAAG
1 AGCCATA-ATCAGGAAGCTTACAAAG
*
43878381 AGCCATTAATCGGGAAGCTTACAAAG
1 AGCCA-TAATCAGGAAGCTTACAAAG
43878407 AGCC-T-ATCAGGAAGCTTA
1 AGCCATAATCAGGAAGCTTA
43878425 TCCGGGCTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 12 0.31
24 1 0.03
26 24 0.62
27 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (25 bp):
AGCCATAATCAGGAAGCTTACAAAG
Found at i:43879725 original size:25 final size:24
Alignment explanation
Indices: 43879687--43879776 Score: 119
Period size: 24 Copynumber: 3.8 Consensus size: 24
43879677 GGACTCACCA
* *
43879687 CAGCTCGTATGAGCTTATTGATTAT
1 CAGCTCGTAAGAGCTTACTGATT-T
*
43879712 CAGCTCGTAAGAGCTTACTGTTTT
1 CAGCTCGTAAGAGCTTACTGATTT
*
43879736 CAGCTCGTAGGAGCTTACTGA-TT
1 CAGCTCGTAAGAGCTTACTGATTT
*
43879759 CAGCTCGTCAGAGCTTAC
1 CAGCTCGTAAGAGCTTAC
43879777 CATTTTAGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
23 18 0.31
24 20 0.34
25 20 0.34
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACTGATTT
Found at i:43879818 original size:24 final size:23
Alignment explanation
Indices: 43879688--43879819 Score: 90
Period size: 23 Copynumber: 5.6 Consensus size: 23
43879678 GACTCACCAC
* * *
43879688 AGCTCGTATGAGCTTATTGATTATC
1 AGCTCGTAAGAGCTTACT-ATT-TT
*
43879713 AGCTCGTAAGAGCTTACTGTTTT
1 AGCTCGTAAGAGCTTACTATTTT
* *
43879736 CAGCTCGTAGGAGCTTACTGA-TTC
1 -AGCTCGTAAGAGCTTACT-ATTTT
* *
43879760 AGCTCGTCAGAGCTTACCATTTT
1 AGCTCGTAAGAGCTTACTATTTT
*
43879783 AGCT--TAATAGAGCTTACTATTCAT
1 AGCTCGT-A-AGAGCTTACTATT-TT
*
43879807 AGCTCGAAAGAGC
1 AGCTCGTAAGAGC
43879820 GGAAATGATA
Statistics
Matches: 84, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 34 0.40
24 31 0.37
25 17 0.20
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACTATTTT
Found at i:43881615 original size:65 final size:65
Alignment explanation
Indices: 43881490--43881639 Score: 169
Period size: 65 Copynumber: 2.3 Consensus size: 65
43881480 CGAGCCATAT
* * *
43881490 CAAGATGCTCACAAAGAGCTGCGTTTGTGCTTGCAACATATGCAAGATCAAAATGTATCATAAAA
1 CAAGATGCTCACAAAGAGCTACGTTTGTGCTGGCAACATATGCAAGATCAAAACGTATCATAAAA
* * * * * * *
43881555 CAGGATGCTCACTAAGAGCTACGTTTGTG-TCGGTAATATATGCAAGATCACTACCG-ATCATAT
1 CAAGATGCTCACAAAGAGCTACGTTTGTGCT-GGCAACATATGCAAGATCA-AAACGTATCATAA
43881618 AA
64 AA
*
43881620 CAAGACGCTCACAAAGAGCT
1 CAAGATGCTCACAAAGAGCT
43881640 GTGGTAATCC
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
64 1 0.01
65 67 0.96
66 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (65 bp):
CAAGATGCTCACAAAGAGCTACGTTTGTGCTGGCAACATATGCAAGATCAAAACGTATCATAAAA
Found at i:43886870 original size:47 final size:46
Alignment explanation
Indices: 43886808--43886906 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 46
43886798 TCTTAAATAG
*
43886808 GTCTTAAGTCTATTAATACATG-T-TAATTAGTACAGCATTTTAATGT
1 GTCTTAAGTCTATTAAT--ATGTTATAATAAGTACAGCATTTTAATGT
* *
43886854 GTCTTAAGTTTAATTAATATGTTATAATAAGTACAGCTTTTTAATGT
1 GTCTTAAGTCT-ATTAATATGTTATAATAAGTACAGCATTTTAATGT
43886901 GTCTTA
1 GTCTTA
43886907 GATTAAGATA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
45 3 0.06
46 11 0.23
47 33 0.70
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.45
Consensus pattern (46 bp):
GTCTTAAGTCTATTAATATGTTATAATAAGTACAGCATTTTAATGT
Found at i:43887936 original size:170 final size:170
Alignment explanation
Indices: 43887629--43887942 Score: 504
Period size: 170 Copynumber: 1.8 Consensus size: 170
43887619 AAAACTATTC
* *
43887629 AACTATTTAGCTATTCAAGGCAGCCCCTTAAAGGTAGTTCACATCTCTTGGCTGATCATATTCAG
1 AACTATTCAACTATTCAAGGCAGCCCCTTAAAGGTAGTTCACATCTCTTGGCTGATCATATTCAG
* * * * *
43887694 GTCCATTCATCTCATCTTTCACTTCAATTAATCAAGCTGGCCTAGAAAGCATTAACGGATGTTTT
66 CTCCATTCATCTCATCTTTCACTTCAATTAATCAAGCTAGCCTAGAAAGCATCAACGGACGTTTC
*
43887759 GGAAGGTTCAAGGATGCCCAAGCTTCCATTTGAAGTCCAA
131 AGAAGGTTCAAGGATGCCCAAGCTTCCATTTGAAGTCCAA
* *
43887799 AACTATTCAACTATTCAAGGCAGCCCCTTAAAGGCT-GTTCACATCTCTTGGTTGATTATATTCA
1 AACTATTCAACTATTCAAGGCAGCCCCTTAAAGG-TAGTTCACATCTCTTGGCTGATCATATTCA
* *
43887863 GCTCCATTCATCTCATCTTTCACTTCAATTAATCAAGCTAGCCTAGGAAGCATCAAGGGACGTTT
65 GCTCCATTCATCTCATCTTTCACTTCAATTAATCAAGCTAGCCTAGAAAGCATCAACGGACGTTT
43887928 CAGAAGGTTCAAGGA
130 CAGAAGGTTCAAGGA
43887943 AGTTTCCAGC
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
170 130 0.99
171 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (170 bp):
AACTATTCAACTATTCAAGGCAGCCCCTTAAAGGTAGTTCACATCTCTTGGCTGATCATATTCAG
CTCCATTCATCTCATCTTTCACTTCAATTAATCAAGCTAGCCTAGAAAGCATCAACGGACGTTTC
AGAAGGTTCAAGGATGCCCAAGCTTCCATTTGAAGTCCAA
Found at i:43888665 original size:22 final size:22
Alignment explanation
Indices: 43888638--43888692 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
43888628 ATTTTTGTAC
43888638 AAAGTTGTGAAA-TATAAAAAA
1 AAAGTTGTGAAATTATAAAAAA
*
43888659 AAGAGTTCG-AAAATTATAAAAAA
1 AA-AGTT-GTGAAATTATAAAAAA
*
43888682 AAAGTTTTGAA
1 AAAGTTGTGAA
43888693 GTGCTCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 2 0.07
22 13 0.48
23 12 0.44
ACGTcount: A:0.58, C:0.02, G:0.15, T:0.25
Consensus pattern (22 bp):
AAAGTTGTGAAATTATAAAAAA
Found at i:43890309 original size:65 final size:65
Alignment explanation
Indices: 43890165--43890311 Score: 177
Period size: 65 Copynumber: 2.3 Consensus size: 65
43890155 AAGCCATATC
* * * * **
43890165 AGGATGCTCACAAAGAACTGCGTTTGTGTCTGCAACACATGCAAGATCACAACCGATTATAAAAA
1 AGGACGCTCACAAAGAGCTACGTTTGTGTCTGCAACACATGCAAGACCACAACCGACCATAAAAA
* * * * *
43890230 AGGATGCTCACAAAGAGCTACGTTTGTGTCTGCAATATATGCAAGACCACAACCGACCATATAAT
1 AGGACGCTCACAAAGAGCTACGTTTGTGTCTGCAACACATGCAAGACCACAACCGACCATAAAAA
* *
43890295 AGTACGCTCTCAAAGAG
1 AGGACGCTCACAAAGAG
43890312 TTGCGGTAGT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (65 bp):
AGGACGCTCACAAAGAGCTACGTTTGTGTCTGCAACACATGCAAGACCACAACCGACCATAAAAA
Found at i:43891670 original size:22 final size:22
Alignment explanation
Indices: 43891645--43891688 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
43891635 CCAAGTTCCC
* *
43891645 ATGGAGACTTGGGTTGAGTTAA
1 ATGGAAACTTGGGTTAAGTTAA
*
43891667 ATGGAAACTTTGGTTAAGTTAA
1 ATGGAAACTTGGGTTAAGTTAA
43891689 GAAGAAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.34
Consensus pattern (22 bp):
ATGGAAACTTGGGTTAAGTTAA
Found at i:43892687 original size:32 final size:32
Alignment explanation
Indices: 43892644--43892722 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
43892634 AACTCTGGAT
*
43892644 AGGAAAGCCTTTGTGACAAGCACTAGATATAA
1 AGGATAGCCTTTGTGACAAGCACTAGATATAA
* * * *
43892676 AGGATAGCCTTTGTGGCGAGTACTGGATATAA
1 AGGATAGCCTTTGTGACAAGCACTAGATATAA
* *
43892708 AGAATAGGCTTTGTG
1 AGGATAGCCTTTGTG
43892723 GCACAATTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (32 bp):
AGGATAGCCTTTGTGACAAGCACTAGATATAA
Found at i:43892843 original size:29 final size:29
Alignment explanation
Indices: 43892800--43892868 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
43892790 GTTTAAGAAC
* *
43892800 GCCTTTGTCGTAAATCTTTGAAAGGAAAT
1 GCCTTTGTGGCAAATCTTTGAAAGGAAAT
43892829 GCCTTTGTGGCAAATCTTTGAAAGGAAAT
1 GCCTTTGTGGCAAATCTTTGAAAGGAAAT
*
43892858 GCCTTTATGGC
1 GCCTTTGTGGC
43892869 GATCTCTGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (29 bp):
GCCTTTGTGGCAAATCTTTGAAAGGAAAT
Found at i:43899583 original size:60 final size:60
Alignment explanation
Indices: 43899486--43899605 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
43899476 GGCATTATAG
* *
43899486 AGGGATTATATGCTTATGTATTCTGGAGGAGATCTCACTCCTATTGGTTATATCAATTCT
1 AGGGATTATATGCTTATGTATTCTGGAAGAGACCTCACTCCTATTGGTTATATCAATTCT
* * *
43899546 AGGGATTATATGTTTATGTATTTTGGAAGAGACCTCACTCCTATTGGTTATATCGATTCT
1 AGGGATTATATGCTTATGTATTCTGGAAGAGACCTCACTCCTATTGGTTATATCAATTCT
43899606 TACTTCCAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (60 bp):
AGGGATTATATGCTTATGTATTCTGGAAGAGACCTCACTCCTATTGGTTATATCAATTCT
Found at i:43901948 original size:34 final size:34
Alignment explanation
Indices: 43901905--43901977 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
43901895 TATGTATGTG
43901905 ATTATATGACTGGTTACTTCAGAATATTTATGAA
1 ATTATATGACTGGTTACTTCAGAATATTTATGAA
*
43901939 ATTATATGACTGGTTACTTCAGAATATTTATGAC
1 ATTATATGACTGGTTACTTCAGAATATTTATGAA
43901973 ATTAT
1 ATTAT
43901978 GAATGTCTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (34 bp):
ATTATATGACTGGTTACTTCAGAATATTTATGAA
Found at i:43902423 original size:41 final size:41
Alignment explanation
Indices: 43902366--43902451 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
43902356 GAGTTTAGGA
43902366 AAATCCATTGTAACACCCTATACCAACCTGGACACTAAGCC
1 AAATCCATTGTAACACCCTATACCAACCTGGACACTAAGCC
*
43902407 AAATCCATTGTAACACCCTATACCGACCTGGACACTAAGCC
1 AAATCCATTGTAACACCCTATACCAACCTGGACACTAAGCC
43902448 AAAT
1 AAAT
43902452 ATCGAGATGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.37, C:0.33, G:0.10, T:0.20
Consensus pattern (41 bp):
AAATCCATTGTAACACCCTATACCAACCTGGACACTAAGCC
Found at i:43919842 original size:27 final size:27
Alignment explanation
Indices: 43919808--43919936 Score: 147
Period size: 27 Copynumber: 4.8 Consensus size: 27
43919798 AGACTGCCAA
43919808 ATAT-TGTGGCAGAGCCACCAGAACAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
43919834 ATATATGTGGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
43919861 ATA-ATTGTGGCATAGCCACTA-AGACAG
1 ATATA-TGTGGCAGAGCCACCAGA-ACAG
**
43919888 ATATATGTGGCAGAGCCACCAGATTAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
43919915 ATAAATTGTGGCATAGCCACCA
1 ATATA-TGTGGCAGAGCCACCA
43919937 AGACGCTTCC
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
26 6 0.07
27 64 0.74
28 17 0.20
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
ATATATGTGGCAGAGCCACCAGAACAG
Found at i:43919878 original size:54 final size:55
Alignment explanation
Indices: 43919810--43919940 Score: 212
Period size: 54 Copynumber: 2.4 Consensus size: 55
43919800 ACTGCCAAAT
*
43919810 ATTGTGGCAGAGCCACC-AGAACAGATATATGTGGCAGAGCCACCAGATCAGAT-A
1 ATTGTGGCATAGCCACCAAG-ACAGATATATGTGGCAGAGCCACCAGATCAGATAA
* *
43919864 ATTGTGGCATAGCCACTAAGACAGATATATGTGGCAGAGCCACCAGATTAGATAA
1 ATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAGCCACCAGATCAGATAA
43919919 ATTGTGGCATAGCCACCAAGAC
1 ATTGTGGCATAGCCACCAAGAC
43919941 GCTTCCTCCA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
54 47 0.66
55 24 0.34
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (55 bp):
ATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAGCCACCAGATCAGATAA
Found at i:43921527 original size:26 final size:26
Alignment explanation
Indices: 43921492--43921599 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
43921482 TGAAATGGCC
* *
43921492 ATCATAGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
43921518 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
43921544 ACCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
43921570 ACCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
43921596 ATCA
1 ATCA
43921600 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:43926213 original size:47 final size:47
Alignment explanation
Indices: 43926155--43926596 Score: 695
Period size: 47 Copynumber: 9.4 Consensus size: 47
43926145 CAGCCAAGAC
*
43926155 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
43926202 AGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
43926249 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
43926296 AATGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
43926343 AGTGTATATGTGTGCTAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
43926390 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
43926437 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
43926484 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
43926531 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
43926578 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
43926597 TCCCGAAGGG
Statistics
Matches: 365, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 365 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:43926771 original size:37 final size:37
Alignment explanation
Indices: 43926715--43926793 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
43926705 CCGAGCTCTA
* *
43926715 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTGTGTCCGGGT
*
43926752 AAGACCCGATAACTTCGTGTGGAGATTGTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTGTGTCCGGGT
43926789 AAGAC
1 AAGAC
43926794 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTGTGTCCGGGT
Found at i:43928577 original size:41 final size:41
Alignment explanation
Indices: 43928531--43928620 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
43928521 CACAAAAATA
* * * *
43928531 AATTCATGGTTACCGAAGTACAAACGAGGGCA-TGTATGTGC
1 AATTCAAGGGTACCGAAGTACAAACAAGGG-AGCGTATGTGC
*
43928572 AATTCAAGGGTACCGAAGTACAAATAAGGGAGCGTATGTGC
1 AATTCAAGGGTACCGAAGTACAAACAAGGGAGCGTATGTGC
43928613 AATTCAAG
1 AATTCAAG
43928621 AATAATTTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.02
41 42 0.98
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
AATTCAAGGGTACCGAAGTACAAACAAGGGAGCGTATGTGC
Found at i:43932305 original size:14 final size:16
Alignment explanation
Indices: 43932283--43932316 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
43932273 AGTGATCGAA
43932283 AAAAGTAC-AAAAAAT
1 AAAAGTACAAAAAAAT
43932298 AAAA-TACAAAAAAAT
1 AAAAGTACAAAAAAAT
43932313 AAAA
1 AAAA
43932317 AATATTACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAGTACAAAAAAAT
Found at i:43938069 original size:45 final size:45
Alignment explanation
Indices: 43937990--43938152 Score: 256
Period size: 45 Copynumber: 3.6 Consensus size: 45
43937980 TAGCATTTTC
*
43937990 CCTGCTAGGCTCGAA-GCCCGAATAGTATCTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAG
* * *
43938034 CCTGCTAGGCTCAAAGGCCCGAGTGGTATTTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAG
*
43938079 CCTGCTAGGCTCAAAGACCCGAATAGTATCTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAG
* *
43938124 CCTGCTAGGTTCAAAGGCCTGAATAGTAT
1 CCTGCTAGGCTCAAAGGCCCGAATAGTAT
43938153 TGTGCGGTGT
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 14 0.13
45 93 0.87
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (45 bp):
CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAG
Found at i:43945677 original size:43 final size:44
Alignment explanation
Indices: 43945612--43945714 Score: 176
Period size: 43 Copynumber: 2.4 Consensus size: 44
43945602 AGGTTTACCA
43945612 CAAAGGCCCGAAT-GTATTCACCGGCATTATAGCCTGCTAGGCT
1 CAAAGGCCCGAATAGTATTCACCGGCATTATAGCCTGCTAGGCT
43945655 CAAA-G-CCGAATAGTATCTCACCGGCATTATAGCCTGCTAGGCT
1 CAAAGGCCCGAATAGTAT-TCACCGGCATTATAGCCTGCTAGGCT
43945698 CAAAGGCCCGAATAGTA
1 CAAAGGCCCGAATAGTA
43945715 CTATGCGATA
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
41 6 0.11
42 5 0.09
43 34 0.61
44 1 0.02
45 10 0.18
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (44 bp):
CAAAGGCCCGAATAGTATTCACCGGCATTATAGCCTGCTAGGCT
Found at i:43956983 original size:26 final size:26
Alignment explanation
Indices: 43956903--43956993 Score: 119
Period size: 27 Copynumber: 3.4 Consensus size: 26
43956893 ATTACCAAAG
* *
43956903 TACCCTCGATTTATAGAATCACTGTTT
1 TACCCTCGATTTACA-AATTACTGTTT
*
43956930 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTAC-AAATTACTGTTT
**
43956957 TACCCTCGATTTACAAATTACCATTT
1 TACCCTCGATTTACAAATTACTGTTT
43956983 TACCCTCGATT
1 TACCCTCGATT
43956994 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 21 0.37
27 35 0.61
28 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (26 bp):
TACCCTCGATTTACAAATTACTGTTT
Found at i:43957063 original size:53 final size:57
Alignment explanation
Indices: 43956983--43957123 Score: 138
Period size: 53 Copynumber: 2.6 Consensus size: 57
43956973 ATTACCATTT
* * ** *
43956983 TACCCTCGA-TTGTGAAATTACTGAAATACCCCTATAGG-GTA-G-AATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTACAGGTGTATGAAATTACCAAAA
* * *
43957036 TACCC-CTAGTTTGTAAAA-TACCAAAATA---CTACCGGTTTATGAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCCTACAGGTGTATGAAATTACCAAAA
43957089 TACCCTCAATTTGTAAAATTACCAAAATACCCCTA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTA
43957124 ATTACACAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
50 5 0.07
51 2 0.03
52 2 0.03
53 39 0.57
54 18 0.26
57 3 0.04
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (57 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTACAGGTGTATGAAATTACCAAAA
Found at i:43957107 original size:27 final size:26
Alignment explanation
Indices: 43957025--43957121 Score: 115
Period size: 27 Copynumber: 3.7 Consensus size: 26
43957015 TATAGGGTAG
43957025 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCC-AGTTTGTAA
* * * *
43957052 AA-TACCAAAATACTACCGGTTTATGA
1 AATTACCAAAATAC-CCCAGTTTGTAA
*
43957078 AATTACCAAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCC-CAGTTTGTAA
43957105 AATTACCAAAATACCCC
1 AATTACCAAAATACCCC
43957122 TAATTACACA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
26 21 0.36
27 37 0.64
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (26 bp):
AATTACCAAAATACCCCAGTTTGTAA
Found at i:43957198 original size:27 final size:27
Alignment explanation
Indices: 43957125--43957209 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
43957115 ATACCCCTAA
* * *
43957125 TTACACAATTATAGAAATACCCTTGACT
1 TTACAAAATTATAGAAATACCATTG-GT
43957153 TT-CTAAAAATTATAGAAATACCATTGGT
1 TTAC--AAAATTATAGAAATACCATTGGT
*
43957181 TTACAAAATTACTA-AAATACCCTTGGT
1 TTACAAAATTA-TAGAAATACCATTGGT
43957208 TT
1 TT
43957210 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
27 22 0.45
28 7 0.14
29 20 0.41
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.35
Consensus pattern (27 bp):
TTACAAAATTATAGAAATACCATTGGT
Done.