Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 137 of 255
Found at i:44164954 original size:25 final size:25
Alignment explanation
Indices: 44164874--44164954 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
44164864 CGAATGGCCA
*
44164874 ATGTGATGAATGTGAGCATGTATAT
1 ATGTGATGAATGTGAACATGTATAT
* * ***
44164899 ATGTGAT-AAGGCCG-A-ATG-GCCT
1 ATGTGATGAATG-TGAACATGTATAT
44164921 ATGTGATGAATGTGAACATGTATAT
1 ATGTGATGAATGTGAACATGTATAT
44164946 ATGTGATGA
1 ATGTGATGA
44164955 GGCCGAATGG
Statistics
Matches: 40, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 6 0.15
25 18 0.45
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGTATAT
Found at i:44165235 original size:37 final size:37
Alignment explanation
Indices: 44165129--44165243 Score: 158
Period size: 37 Copynumber: 3.1 Consensus size: 37
44165119 GGAAATATAT
* * * *
44165129 TCCGGGTGAGACCCGATGACTACGTGTGTAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
44165166 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
44165203 TTCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
44165240 TCCG
1 TCCG
44165244 AGCTAAAGGT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:44166705 original size:120 final size:120
Alignment explanation
Indices: 44166504--44166803 Score: 510
Period size: 120 Copynumber: 2.5 Consensus size: 120
44166494 TGAAATGTCT
44166504 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGT
1 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGT
*
44166569 GCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
66 GCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
* *
44166624 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCTGAAGAGCATTCGT
1 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGT
44166689 GCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
66 GCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
* * * * * **
44166744 GTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCA
44166804 ATCATGCTGG
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 168 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGT
GCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
Found at i:44166815 original size:40 final size:40
Alignment explanation
Indices: 44166504--44166803 Score: 438
Period size: 40 Copynumber: 7.5 Consensus size: 40
44166494 TGAAATGTCT
*
44166504 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
* *
44166544 GGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
* * *
44166584 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
44166624 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
* * *
44166664 GGGCTAAATCCTGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
* *
44166704 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
* ** * * *
44166744 GTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
*
44166784 GGGCTAGGTCCCGAAGAGCA
1 GGGCTAAGTCCCGAAGAGCA
44166804 ATCATGCTGG
Statistics
Matches: 233, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 233 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
Found at i:44170967 original size:47 final size:47
Alignment explanation
Indices: 44170913--44171188 Score: 410
Period size: 47 Copynumber: 5.9 Consensus size: 47
44170903 TTAGGATTTT
**
44170913 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
44170960 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
44171007 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
44171054 ATGTGATGAATGTGAGCATGCT-TATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATG-TATATATGTGATAAGGCCGAATGGCCA
*
44171101 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
44171148 ATGTGATGAATGTGAGCATGCATATATATGATAAGGCCGAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAA
44171189 CGACCAAATG
Statistics
Matches: 204, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.00
47 202 0.99
48 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:44171029 original size:94 final size:94
Alignment explanation
Indices: 44170913--44171188 Score: 462
Period size: 94 Copynumber: 2.9 Consensus size: 94
44170903 TTAGGATTTT
**
44170913 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
* *
44170978 TGCATATGTGTGATAAGGCTGAATGGCCA
66 TGCATATATGTGATAAGGCCGAATGGCCA
* *
44171007 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
* *
44171072 TGCTTATATGTGATAAGGCCGAATGGCCT
66 TGCATATATGTGATAAGGCCGAATGGCCA
*
44171101 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
*
44171166 TGCATATATATGATAAGGCCGAA
66 TGCATATATGTGATAAGGCCGAA
44171189 CGACCAAATG
Statistics
Matches: 169, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 169 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
TGCATATATGTGATAAGGCCGAATGGCCA
Found at i:44171359 original size:37 final size:37
Alignment explanation
Indices: 44171309--44171460 Score: 225
Period size: 37 Copynumber: 4.1 Consensus size: 37
44171299 GGAAATATAT
* * *
44171309 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
44171346 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
44171383 -CCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCC-GGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
44171420 TTCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
44171457 TCCG
1 TCCG
44171461 AGCTAAAGGT
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
36 2 0.02
37 102 0.97
38 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:44172517 original size:27 final size:27
Alignment explanation
Indices: 44172386--44172757 Score: 147
Period size: 27 Copynumber: 13.7 Consensus size: 27
44172376 TTCATCCTAC
* *** *
44172386 AAGGGTGTTTTGGTAAACCTACAAATC
1 AAGGGTATTTTGGTAATTTTACAAATT
* * **
44172413 AAAGGTATTTTTGTAATTTTGTAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
*
44172440 AAGGGTATTTTGGTAATTTTATAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
* * *
44172467 GAGGGTATTTCGGTAATTTCACAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
*
44172494 -AGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAATT
* * * **
44172521 AGGGGTGTTTTGGTAATTCTAC-CCTAT
1 AAGGGTATTTTGGTAATTTTACAAAT-T
* ** * *
44172548 AGGGGTATTTCAGTAATTTCAC-AATC
1 AAGGGTATTTTGGTAATTTTACAAATT
* *** **
44172574 GAGGGTAAAATGGTAATTTTGTAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
* ***** * ** *
44172601 AGGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTGGTAATTTTACAAATT
* *** * * *
44172628 GAGGGTAAAATAGTAATTCTATAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
* * * *
44172655 GAGGGTACTTTGGTAATTTGTACAAGTC
1 AAGGGTATTTTGGTAATTT-TACAAATT
* **
44172683 GAGGGTATTTAAGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
* * **
44172710 AGGGGGTATTTTAGTAATTTTACAAACC
1 A-AGGGTATTTTGGTAATTTTACAAATT
* *
44172738 AGGGGTATTTTAGTAATTTT
1 AAGGGTATTTTGGTAATTTT
44172758 GTAAATCGAG
Statistics
Matches: 266, Mismatches: 73, Indels: 12
0.76 0.21 0.03
Matches are distributed among these distances:
26 14 0.05
27 207 0.78
28 45 0.17
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAATT
Found at i:44172709 original size:55 final size:54
Alignment explanation
Indices: 44172639--44172771 Score: 142
Period size: 55 Copynumber: 2.4 Consensus size: 54
44172629 AGGGTAAAAT
* * **
44172639 AGTAATTCTATAAATTGAGGGTACTTTGGTAATTTGTACAAGTC-GAGGGTATTTA
1 AGTAATTTTATAAATTGAGGGTACTTTAGTAATTT-TACAAACCAG-GGGTATTTA
* * * *
44172694 AGTAATTTTACAAATTAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 AGTAATTTTATAAATT-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTA
* *
44172749 AGTAATTTTGTAAATCGAGGGTA
1 AGTAATTTTATAAATTGAGGGTA
44172772 AAACGGTAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
54 6 0.09
55 41 0.64
56 17 0.27
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (54 bp):
AGTAATTTTATAAATTGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTA
Found at i:44172716 original size:28 final size:27
Alignment explanation
Indices: 44172685--44172757 Score: 110
Period size: 28 Copynumber: 2.7 Consensus size: 27
44172675 TACAAGTCGA
* **
44172685 GGGTATTTAAGTAATTTTACAAATTAGG
1 GGGTATTTTAGTAATTTTACAAACCA-G
44172713 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAG
44172740 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
44172758 GTAAATCGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 19 0.45
28 23 0.55
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAG
Found at i:44172770 original size:27 final size:27
Alignment explanation
Indices: 44172612--44172843 Score: 117
Period size: 27 Copynumber: 8.5 Consensus size: 27
44172602 GGGGTAAAAC
* ***
44172612 AGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTATTTT
* * * *
44172639 AGTAATTCTATAAATTGAGGGTACTTT
1 AGTAATTTTGTAAATCGAGGGTATTTT
* *
44172666 GGTAA-TTTGTACAAGTCGAGGGTATTTA
1 AGTAATTTTGTA-AA-TCGAGGGTATTTT
** * *
44172694 AGTAATTTTACAAATTAGGGGGTATTTT
1 AGTAATTTTGTAAA-TCGAGGGTATTTT
** *
44172722 AGTAATTTTACAAA-CCAGGGGTATTTT
1 AGTAATTTTGTAAATCGA-GGGTATTTT
****
44172749 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTATTTT
* * * ****
44172776 GGTAATTCTATAAATCGAGGGTAGAAC
1 AGTAATTTTGTAAATCGAGGGTATTTT
* * * *
44172803 GGTAATTCTGTAAATCGGGGGTACTTT
1 AGTAATTTTGTAAATCGAGGGTATTTT
*
44172830 AGTAATTTGGTAAA
1 AGTAATTTTGTAAA
44172844 CTAAAGTATT
Statistics
Matches: 159, Mismatches: 41, Indels: 10
0.76 0.20 0.05
Matches are distributed among these distances:
26 4 0.03
27 109 0.69
28 42 0.26
29 4 0.03
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTATTTT
Found at i:44175092 original size:31 final size:31
Alignment explanation
Indices: 44175056--44175160 Score: 174
Period size: 31 Copynumber: 3.4 Consensus size: 31
44175046 ACGGTTACTA
44175056 GCCGAAACCTTTTCATAAATCATATCACTGG
1 GCCGAAACCTTTTCATAAATCATATCACTGG
* *
44175087 GCCGAAGCCTTTTCATAAATCATATCACTAG
1 GCCGAAACCTTTTCATAAATCATATCACTGG
* *
44175118 GCCGAAGCCTTTTCATAAATCATTTCACTGG
1 GCCGAAACCTTTTCATAAATCATATCACTGG
44175149 GCCGAAACCTTT
1 GCCGAAACCTTT
44175161 ACTGTAAATG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (31 bp):
GCCGAAACCTTTTCATAAATCATATCACTGG
Found at i:44175231 original size:42 final size:42
Alignment explanation
Indices: 44175184--44175275 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
44175174 TGGCCTATAG
* ** *
44175184 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
44175226 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
44175268 GCCCATTT
1 GCCCATTT
44175276 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:44175435 original size:24 final size:25
Alignment explanation
Indices: 44175408--44175517 Score: 86
Period size: 26 Copynumber: 4.4 Consensus size: 25
44175398 CTGGAGGCCT
44175408 AGCCTCTTTT-AATAACTGGGGCAA
1 AGCCTCTTTTCAATAACTGGGGCAA
**
44175432 AGCC-CTTTTCGGTAAACTGGGGCAA
1 AGCCTCTTTTCAAT-AACTGGGGCAA
* *
44175457 AGCCT-TTTTCAATAAAATAGGGCATA
1 AGCCTCTTTTCAAT-AACTGGGGCA-A
**
44175483 AGCC-CTTTTCGGTAAACTGGGGCATA
1 AGCCTCTTTTCAAT-AACTGGGGCA-A
44175509 AGCC-CTTTT
1 AGCCTCTTTT
44175518 GCACTTCCTC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
23 5 0.07
24 5 0.07
25 30 0.42
26 31 0.44
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
AGCCTCTTTTCAATAACTGGGGCAA
Found at i:44175449 original size:25 final size:26
Alignment explanation
Indices: 44175421--44175517 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
44175411 CTCTTTTAAT
44175421 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
44175446 AACTGGGGCA-AAGCCTTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* *
44175471 AAATAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
44175497 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
44175518 GCACTTCCTC
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
25 30 0.49
26 31 0.51
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:44175592 original size:20 final size:20
Alignment explanation
Indices: 44175567--44175653 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
44175557 TTATGAATAC
*
44175567 ATCATGTGCATTTCATACGT
1 ATCATGTGCATTTCATACAT
*
44175587 ATCATGTGCGTTTCATACAT
1 ATCATGTGCATTTCATACAT
*
44175607 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
44175627 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
44175647 ATCATGT
1 ATCATGT
44175654 ATATCATATC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:44176402 original size:27 final size:27
Alignment explanation
Indices: 44176341--44176404 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
44176331 GGCGTATTCA
*
44176341 TCATTTTACCATACAAGGGTATTACAG
1 TCATTTTACCATACAAGGCTATTACAG
* *
44176368 TCACTTTACCCTACAGAGGCT-TTACAG
1 TCATTTTACCATACA-AGGCTATTACAG
*
44176395 TCTTTTTACC
1 TCATTTTACC
44176405 TATTAAGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGCTATTACAG
Found at i:44176532 original size:81 final size:81
Alignment explanation
Indices: 44176437--44176588 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 81
44176427 TCATCCTACA
* * ** *
44176437 AGGGTGTTTTGGTAAATCT-ACAAATCAAG-GGTATTTCT-GTAATTTTGTAAATTAGGGGTATT
1 AGGGTATTTCGGT-AATCTCACAAA-CAAGTGGTATTT-TGGTAATTTTACAAACTAGGGGTATT
44176499 TTGGTAATTTTACAAATTG
63 TTGGTAATTTTACAAATTG
* * *
44176518 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTG
1 AGGGTATTTCGGTAATCTCACAAACAAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
44176583 GTAATT
66 GTAATT
44176589 CTACCCTATA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
80 8 0.13
81 52 0.87
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (81 bp):
AGGGTATTTCGGTAATCTCACAAACAAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
GTAATTTTACAAATTG
Found at i:44176551 original size:54 final size:54
Alignment explanation
Indices: 44176438--44176568 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
44176428 CATCCTACAA
* * * * *** **
44176438 GGGTGTTTTGGTAAATCTACAAATCAAGGGTATTTCTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAG
**
44176492 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAG
*
44176546 TGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA
44176569 CTAGGGGTGT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAG
Found at i:44176569 original size:27 final size:26
Alignment explanation
Indices: 44176437--44176588 Score: 117
Period size: 27 Copynumber: 5.7 Consensus size: 26
44176427 TCATCCTACA
* * * *
44176437 AGGGTGTTTTGGTAAATCTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAA-CC
** **
44176464 AGGGTATTTCT-GTAATTTTGTAAATT
1 AGGGTATTT-TGGTAATTTTACAAACC
**
44176490 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTACAAA-CC
* *
44176518 AGGGTATTTCGGTAATTTCACAAACC
1 AGGGTATTTTGGTAATTTTACAAACC
*
44176544 AGTGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACC
*
44176571 AGGGGTGTTTTGGTAATT
1 A-GGGTATTTTGGTAATT
44176589 CTACCCTATA
Statistics
Matches: 101, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
26 4 0.04
27 93 0.92
28 4 0.04
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACC
Found at i:44176604 original size:81 final size:80
Alignment explanation
Indices: 44176466--44176620 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 80
44176456 ACAAATCAAG
** * * * *
44176466 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGT
1 GGTATTTCTGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTT-AGT
44176531 AATTTCACAAACCAGT
65 AATTTCACAAACCAGT
* **
44176547 GGTATTT-TGGTAATTTTACAAACTAGGGGTGTTTTGGTAATTCTACCCTATAG-GGGTATTTAG
1 GGTATTTCT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAATAGAGGGTATTTAG
44176610 TAATTTCACAA
64 TAATTTCACAA
44176621 TCGAGGGTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 13 0.21
81 46 0.73
82 4 0.06
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (80 bp):
GGTATTTCTGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTAGTA
ATTTCACAAACCAGT
Found at i:44176607 original size:54 final size:54
Alignment explanation
Indices: 44176438--44176588 Score: 153
Period size: 54 Copynumber: 2.8 Consensus size: 54
44176428 CATCCTACAA
* * * * *** *
44176438 GGGTGTTTTGGTAAATCTACAAATCA-AGGGTATTTCTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAAT-AGAGGGTATTTCGGTAATTTCACAAACTAG
* *
44176492 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACTAG
* * *
44176546 TGGTATTTTGGTAATTTTACAAACTAG-GGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATT
44176589 CTACCCTATA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 79 0.98
55 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACTAG
Found at i:44176657 original size:27 final size:27
Alignment explanation
Indices: 44176625--44176901 Score: 100
Period size: 27 Copynumber: 10.2 Consensus size: 27
44176615 TCACAATCGA
*
44176625 GGGTAAAATGGTAATTTTGTAAATCAG
1 GGGTAAAATGGTAATTTTATAAATCAG
* * * *
44176652 GGGTAAAATAGTAATTCTGTAAAT-TG
1 GGGTAAAATGGTAATTTTATAAATCAG
** *
44176678 AGGGTAAAACAGTAATTCTATAAATC-G
1 -GGGTAAAATGGTAATTTTATAAATCAG
*** *
44176705 AGGGTACTTTGGTAATTTT-TACAAGTCAA
1 -GGGTAAAATGGTAATTTTATA-AA-TCAG
** *
44176734 GGGT-ATTTCAGTAATTTTATAAATCAGG
1 GGGTAAAAT-GGTAATTTTATAAATCA-G
** * * *
44176762 GGGT-ATTTCAGTAATTTTACAAACCAG
1 GGGTAAAAT-GGTAATTTTATAAATCAG
*** * * *
44176789 GGGTATTTTAGTAATTTTGTATATC-G
1 GGGTAAAATGGTAATTTTATAAATCAG
* * **
44176815 AGGGTAAAACGGTAATTCTATAAATCTT
1 -GGGTAAAATGGTAATTTTATAAATCAG
*
44176843 GGGTAAAATGGTAATTCTATAAATC-G
1 GGGTAAAATGGTAATTTTATAAATCAG
* * * * *
44176869 AGGGTAGAACGGTAATTCTGTAAATCGG
1 -GGGTAAAATGGTAATTTTATAAATCAG
44176897 GGGTA
1 GGGTA
44176902 CTTTGGTAAT
Statistics
Matches: 201, Mismatches: 36, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
26 4 0.02
27 151 0.75
28 44 0.22
29 2 0.01
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTATAAATCAG
Found at i:44176755 original size:55 final size:54
Alignment explanation
Indices: 44176687--44176820 Score: 153
Period size: 55 Copynumber: 2.4 Consensus size: 54
44176677 GAGGGTAAAA
* * **
44176687 CAGTAATTCTATAAATCGAGGGTACTTT-GGTAATTTTTACAAGTCAAGGGTATTT
1 CAGTAATTTTATAAATCGAGGGTA-TTTCAGTAA-TTTTACAAACCAAGGGTATTT
* *
44176742 CAGTAATTTTATAAATCAGGGGGTATTTCAGTAATTTTACAAACCAGGGGTATTT
1 CAGTAATTTTATAAATC-GAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTT
* * *
44176797 TAGTAATTTTGTATATCGAGGGTA
1 CAGTAATTTTATAAATCGAGGGTA
44176821 AAACGGTAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
54 6 0.09
55 51 0.76
56 10 0.15
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
CAGTAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTT
Found at i:44176765 original size:28 final size:27
Alignment explanation
Indices: 44176687--44176820 Score: 119
Period size: 28 Copynumber: 4.9 Consensus size: 27
44176677 GAGGGTAAAA
* *
44176687 CAGTAATTCTATAAATCGAGGGTACTTT
1 CAGTAATTTTATAAATCAAGGGTA-TTT
*
44176715 -GGTAATTTT-TACAAGTCAAGGGTATTT
1 CAGTAATTTTATA-AA-TCAAGGGTATTT
*
44176742 CAGTAATTTTATAAATCAGGGGGTATTT
1 CAGTAATTTTATAAATCA-AGGGTATTT
* * *
44176770 CAGTAATTTTACAAACCAGGGGTATTT
1 CAGTAATTTTATAAATCAAGGGTATTT
* * * *
44176797 TAGTAATTTTGTATATCGAGGGTA
1 CAGTAATTTTATAAATCAAGGGTA
44176821 AAACGGTAAT
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.02
27 41 0.47
28 42 0.48
29 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
CAGTAATTTTATAAATCAAGGGTATTT
Found at i:44176847 original size:54 final size:54
Alignment explanation
Indices: 44176788--44176913 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
44176778 TTACAAACCA
* * * * *
44176788 GGGGTATTTTAGTAATTTTGTATATCGAGGGTAAAACGGTAATTCTATAAATCT
1 GGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCG
* ** * * *
44176842 TGGGTAAAATGGTAATTCTATAAATCGAGGGTAGAACGGTAATTCTGTAAATCG
1 GGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCG
*
44176896 GGGGTACTTTGGTAATTT
1 GGGGTAATTTGGTAATTT
44176914 GGTAAACTAA
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (54 bp):
GGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCG
Found at i:44176909 original size:27 final size:27
Alignment explanation
Indices: 44176811--44176912 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 27
44176801 AATTTTGTAT
* *
44176811 ATCGAGGGTAAAACGGTAATTCTATAA
1 ATCGAGGGTACAATGGTAATTCTATAA
** *
44176838 ATCTTGGGTAAAATGGTAATTCTATAA
1 ATCGAGGGTACAATGGTAATTCTATAA
* * *
44176865 ATCGAGGGTAGAACGGTAATTCTGTAA
1 ATCGAGGGTACAATGGTAATTCTATAA
* **
44176892 ATCGGGGGTACTTTGGTAATT
1 ATCGAGGGTACAATGGTAATT
44176913 TGGTAAACTA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (27 bp):
ATCGAGGGTACAATGGTAATTCTATAA
Found at i:44182880 original size:30 final size:30
Alignment explanation
Indices: 44182846--44182906 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44182836 TCCTTAACTC
44182846 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
44182876 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
44182906 A
1 A
44182907 GGCTTGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:44189973 original size:18 final size:18
Alignment explanation
Indices: 44189931--44189973 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
44189921 CCGACAACTT
*
44189931 AACAAGGTAACTATCAAG
1 AACAAGTTAACTATCAAG
44189949 AACAAGTTAACTATCAAG
1 AACAAGTTAACTATCAAG
44189967 AACAAGT
1 AACAAGT
44189974 ATCCATTGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (18 bp):
AACAAGTTAACTATCAAG
Found at i:44198038 original size:39 final size:40
Alignment explanation
Indices: 44197943--44198204 Score: 344
Period size: 39 Copynumber: 6.7 Consensus size: 40
44197933 TTGAATGATG
*
44197943 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
44197981 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
44198022 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
44198061 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44198100 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44198139 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44198178 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44198205 AACGAGGAGC
Statistics
Matches: 205, Mismatches: 10, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
39 132 0.64
40 61 0.30
41 11 0.05
42 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:44207785 original size:55 final size:54
Alignment explanation
Indices: 44207690--44207839 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
44207680 CTACTTTGTT
* ** * *
44207690 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
44207744 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
44207799 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
44207840 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:44207802 original size:27 final size:27
Alignment explanation
Indices: 44207662--44207839 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
44207652 TAAATTGTAC
44207662 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
44207689 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
44207715 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
44207743 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
44207771 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
44207798 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
44207825 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44207840 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:44207803 original size:82 final size:81
Alignment explanation
Indices: 44207663--44207818 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
44207653 AAATTGTACA
* * * *
44207663 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
44207728 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
44207744 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
44207807 TGTGCGAGTTGA
63 TGTGCGAATTGA
44207819 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:44215751 original size:27 final size:27
Alignment explanation
Indices: 44215667--44215843 Score: 133
Period size: 27 Copynumber: 6.5 Consensus size: 27
44215657 AAATTGTACA
* * *
44215667 GCACTAAGTGTGCG-ATTCTACTTTGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* * *
44215694 GCACTAAGTGTGCGAAATAAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
44215721 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
** *
44215748 GCACTAAGTGTGCGGGTTTGACTATGTA
1 GCACTAAGTGTGC-GAATTGACTATGTG
* * *
44215776 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * * * *
44215803 GCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTG
*
44215830 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44215844 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
27 96 0.79
28 25 0.21
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:44215789 original size:55 final size:54
Alignment explanation
Indices: 44215721--44215843 Score: 147
Period size: 55 Copynumber: 2.3 Consensus size: 54
44215711 TAAATATGAT
* * * *
44215721 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGGGTTTGACTATGTA
1 GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGCGAG-TTGACTATATA
* ** * *
44215776 GCACTAAGTGTGCGATTTGATTACGTGGCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGCGAGTTGACTATATA
*
44215830 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44215844 GGCTCAATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
54 22 0.38
55 36 0.62
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAATTGACCACGCGGCACTAAATGTGCGAGTTGACTATATA
Found at i:44217459 original size:39 final size:40
Alignment explanation
Indices: 44217368--44217586 Score: 256
Period size: 39 Copynumber: 5.5 Consensus size: 40
44217358 AATGATGTCC
*
44217368 GGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TCCG
*
44217407 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATTCCG
*
44217447 GGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCG
* *
44217486 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCG
* * *
44217525 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-TCCG
*
44217565 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
44217587 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
39 87 0.54
40 61 0.38
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCG
Found at i:44217492 original size:79 final size:79
Alignment explanation
Indices: 44217368--44217586 Score: 270
Period size: 79 Copynumber: 2.8 Consensus size: 79
44217358 AATGATGTCC
*
44217368 GGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGC-AAGT-ACTAATATCCGGGCTAAG-TCCGAAGGCATTTGT
*
44217430 GCGAGATACTAATTCCG
63 GCGAGATACTAAATCCG
*
44217447 GGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAAT-TCCGGGCTAAGCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTAATATCCGGGCTAAGTCCGAAGGCATTTGTGC
*
44217510 GAGTTACTAAATCCG
65 GAGATACTAAATCCG
* * * *
44217525 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTAATATCCGGGCTAAGT-CCGAAGGCATTTG
44217587 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
78 46 0.37
79 54 0.44
80 23 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGTACTAATATCCGGGCTAAGTCCGAAGGCATTTGTGCG
AGATACTAAATCCG
Found at i:44217608 original size:79 final size:79
Alignment explanation
Indices: 44217371--44217619 Score: 219
Period size: 79 Copynumber: 3.2 Consensus size: 79
44217361 GATGTCCGGC
* * **
44217371 TAAGTCCCGAAGGC--TTGTGCTAAG-TGAC-AATATCCGGACTAAGATCCGAAGGCATTTGTGC
1 TAAGTCCCGAAGGCATTTGTGC-AAGAT-ACTAATA-CCGGGCTAAG-CCCGAAGGCATTTGAAC
* *
44217432 GAGAT-ACTAATTCCGGGC
62 GAG-TGACTAAATCCGGGT
* **
44217450 TAAG-CCCGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGT
*
44217514 TACTAAATCCGGGT
66 GACTAAATCCGGGT
* * *
44217528 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTCCCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA
*
44217592 G-GAGCTATATCC-GGT
64 GTGA-CTAAATCCGGGT
* *
44217607 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
44217620 TACGTGATTT
Statistics
Matches: 146, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.31
79 65 0.45
80 35 0.24
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGT
GACTAAATCCGGGT
Found at i:44219444 original size:22 final size:22
Alignment explanation
Indices: 44219416--44219458 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
44219406 TGTGCCTTGG
44219416 CCGTGTGCCCCCAAATGAGTGC
1 CCGTGTGCCCCCAAATGAGTGC
44219438 CCGTGTGCCCCCAAATGAGTG
1 CCGTGTGCCCCCAAATGAGTG
44219459 ATGATGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.35, G:0.28, T:0.19
Consensus pattern (22 bp):
CCGTGTGCCCCCAAATGAGTGC
Found at i:44221732 original size:3 final size:3
Alignment explanation
Indices: 44221724--44221755 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
44221714 ACACGAAGGA
44221724 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
44221756 ATTTAACACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44225686 original size:12 final size:12
Alignment explanation
Indices: 44225669--44225710 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
44225659 GTGTACTGCT
44225669 ACACGGCCTACC
1 ACACGGCCTACC
* *
44225681 ACACGGGCGACC
1 ACACGGCCTACC
*
44225693 ACGCGGCCTACC
1 ACACGGCCTACC
44225705 ACACGG
1 ACACGG
44225711 GCGACAACAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.24, C:0.45, G:0.26, T:0.05
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:44225720 original size:12 final size:12
Alignment explanation
Indices: 44225678--44225721 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
44225668 TACACGGCCT
44225678 ACCACACGGGCG
1 ACCACACGGGCG
* * *
44225690 ACCACGCGGCCT
1 ACCACACGGGCG
44225702 ACCACACGGGCG
1 ACCACACGGGCG
*
44225714 ACAACACG
1 ACCACACG
44225722 CCCATGTGGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.27, C:0.43, G:0.27, T:0.02
Consensus pattern (12 bp):
ACCACACGGGCG
Found at i:44229586 original size:69 final size:70
Alignment explanation
Indices: 44229454--44229587 Score: 182
Period size: 69 Copynumber: 1.9 Consensus size: 70
44229444 TAGTTTATTA
* * * * *
44229454 CTAATTAATTTGCTGCTGTAATGCTGTAAATTTATGGCTGTCCAAATTAGGATAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTTATGGCTGTCCAAATTAGGACAAAATCATGGTG
44229519 CTTAG
66 CTTAG
* *
44229524 CTAATTAATATGCTGTTGTAATACT-TAAA-TTATTGGTTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTTA-TGGCTGTCCAAATTAGGACAAAATCATGGT
44229587 G
65 G
44229588 TTATGTGCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
68 3 0.05
69 31 0.55
70 22 0.39
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTTATGGCTGTCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:44230710 original size:45 final size:45
Alignment explanation
Indices: 44230646--44230864 Score: 288
Period size: 45 Copynumber: 4.9 Consensus size: 45
44230636 TGTGGATTTG
*
44230646 ATTATTCGGGCCTTTGAGCCTAGCAGACTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
* * *
44230691 ATTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGTT
1 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
*
44230736 ATTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAGAT
1 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
* *
44230781 ACTATTTGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-
1 ATTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT
* *
44230824 ATGATATCGGGCC-TCGAGCCTAGCAGG-TGA-AATGCCGGTGA
1 ATTAT-TCGGGCCTTTGAGCCTAGCAGGCT-ATAATGCCGGTGA
44230865 ATGAATTCGA
Statistics
Matches: 155, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
42 12 0.08
43 16 0.10
44 10 0.06
45 117 0.75
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (45 bp):
ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
Found at i:44242138 original size:6 final size:6
Alignment explanation
Indices: 44242121--44242167 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
44242111 ATACCGATGA
* **
44242121 AAAACA AAAACC AAAACC AAGTCC AAAA-C AAAACC AAAACC TAAAAC
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC -AAAAC
44242168 TTAGTTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
5 5 0.15
6 24 0.71
7 5 0.15
ACGTcount: A:0.66, C:0.28, G:0.02, T:0.04
Consensus pattern (6 bp):
AAAACC
Found at i:44250798 original size:14 final size:14
Alignment explanation
Indices: 44250761--44250790 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44250751 TCACATTACT
44250761 TAATTCCATATACA
1 TAATTCCATATACA
44250775 TAATTCCATATACA
1 TAATTCCATATACA
44250789 TA
1 TA
44250791 CTATCATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (14 bp):
TAATTCCATATACA
Found at i:44279426 original size:22 final size:20
Alignment explanation
Indices: 44279386--44279426 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
44279376 CATTGTAGAT
*
44279386 AAATTGATGAATTAGGCTTG
1 AAATTGATGAATTAAGCTTG
44279406 AAATTGATAGATATTAAGCTT
1 AAATTGAT-GA-ATTAAGCTT
44279427 AGATCATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.37
Consensus pattern (20 bp):
AAATTGATGAATTAAGCTTG
Found at i:44289895 original size:141 final size:136
Alignment explanation
Indices: 44289738--44290024 Score: 299
Period size: 140 Copynumber: 2.0 Consensus size: 136
44289728 CAATAAAAAG
* * *
44289738 GAAAAACTTGAGTTTTATAGGGAAAACTTAGGTTTTTACATC-ATTT-TTAATTTTTTCCCCTTT
1 GAAAAAATTGAGTTTTATA-GGAAAAATTA---TTTAAC-TCTATTTCTTAATTTTTT-CCCTTT
*
44289801 TGCAAAATTAATTTTAGTTTTCCTCCAATAAAAGAGAAAAACTTAGGGTTTTACAGGGAATTATT
60 T-CAAAATTAATTTTAGTTTTCCTCCAATAAAAGAGAAAAACTTAGGGTTTTACAGGGAATTACT
*
44289866 TGGATTTTTACAA
124 TGGACTTTTACAA
* * *
44289879 GAAAAAATTGGGTTTTATAGGAAAAATTATTTAACTCGTTAATTTCCTTTATTTTTTCTCTTTTC
1 GAAAAAATTGAGTTTTATAGGAAAAATTATTTAACTC--T-ATTT-CTTAATTTTTTCCCTTTTC
** * * * ** **
44289944 AAAATTAATTTTAGTTTTTTTCTAGTAAAAGGGAAAAACTTTTGGTTTTGTAGGGAATTACTTGG
62 AAAATTAATTTTAGTTTTCCTCCAATAAAAGAGAAAAACTTAGGGTTTTACAGGGAATTACTTGG
44290009 ACTTTTACAA
127 ACTTTTACAA
*
44290019 GGAAAA
1 GAAAAA
44290025 TCATTTTATC
Statistics
Matches: 122, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
136 2 0.02
137 5 0.04
140 83 0.68
141 23 0.19
142 9 0.07
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.43
Consensus pattern (136 bp):
GAAAAAATTGAGTTTTATAGGAAAAATTATTTAACTCTATTTCTTAATTTTTTCCCTTTTCAAAA
TTAATTTTAGTTTTCCTCCAATAAAAGAGAAAAACTTAGGGTTTTACAGGGAATTACTTGGACTT
TTACAA
Found at i:44293708 original size:18 final size:18
Alignment explanation
Indices: 44293687--44293721 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44293677 TTCACTCTCT
44293687 TTTTTCGGTTTTACTTTA
1 TTTTTCGGTTTTACTTTA
*
44293705 TTTTTCGTTTTTACTTT
1 TTTTTCGGTTTTACTTT
44293722 TAAAACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTTTCGGTTTTACTTTA
Found at i:44301481 original size:26 final size:26
Alignment explanation
Indices: 44301452--44301512 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
44301442 ATTTACTAAA
*
44301452 ATACCCCTAAGTATGAAA-TTACCATT
1 ATACCCCTAAGTAT-AAAGTGACCATT
* * *
44301478 ATACCCCTAGGTGTAAAGTGACCGTT
1 ATACCCCTAAGTATAAAGTGACCATT
44301504 ATACCCCTA
1 ATACCCCTA
44301513 GGGTTGATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (26 bp):
ATACCCCTAAGTATAAAGTGACCATT
Found at i:44301663 original size:28 final size:28
Alignment explanation
Indices: 44301619--44301733 Score: 148
Period size: 28 Copynumber: 4.2 Consensus size: 28
44301609 GGAAGCATTT
*
44301619 TGGTGGCCATGCTACAAATATCTGTTTC
1 TGGTGGCCATGCCACAAATATCTGTTTC
*
44301647 TGGTGGCCATGCCACAAATATCTATTTC
1 TGGTGGCCATGCCACAAATATCTGTTTC
* *
44301675 TGGTGGCTATGCCACAAATATCTG-TTA
1 TGGTGGCCATGCCACAAATATCTGTTTC
44301702 TGGTGGCTC-TGCCAC-AATATCTGTATT-
1 TGGTGGC-CATGCCACAAATATCTGT-TTC
44301729 TGGTG
1 TGGTG
44301734 ACTCTATCAC
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 8 0.10
27 20 0.26
28 50 0.64
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (28 bp):
TGGTGGCCATGCCACAAATATCTGTTTC
Found at i:44301744 original size:27 final size:26
Alignment explanation
Indices: 44301686--44301750 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
44301676 GGTGGCTATG
* *
44301686 CCACAAATATCTGTTATGGTGGCTCTG
1 CCAC-AATATCTGTTATGGTGACTCTA
*
44301713 CCACAATATCTGTATTTGGTGACTCTA
1 CCACAATATCTGT-TATGGTGACTCTA
*
44301740 TCACAATATCT
1 CCACAATATCT
44301751 ATTCTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.27
27 24 0.73
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (26 bp):
CCACAATATCTGTTATGGTGACTCTA
Found at i:44312031 original size:50 final size:50
Alignment explanation
Indices: 44311962--44312093 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
44311952 CACATAGTAA
* * * *
44311962 GATGTCAATGCCATATCCCAAATACGGTCTTACATAGGTTCACACATATC
1 GATGTCAATGTCATGTCCCAAATATGGTCTTACATAGGATCACACATATC
* * * * *
44312012 GATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCACATATATC
1 GATGTCAATGTCATGTCCCAAATATGGTCTTACATAGGATCACACATATC
*
44312062 AATGTCAATGTCATGTCCCAAATATGGTCTTA
1 GATGTCAATGTCATGTCCCAAATATGGTCTTA
44312094 TATAAAATCT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (50 bp):
GATGTCAATGTCATGTCCCAAATATGGTCTTACATAGGATCACACATATC
Found at i:44314174 original size:16 final size:16
Alignment explanation
Indices: 44314155--44314189 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44314145 TTTAAAATAG
*
44314155 GTTTTTTAATCATCAT
1 GTTTTTTAAGCATCAT
*
44314171 GTTTTTTAGGCATCAT
1 GTTTTTTAAGCATCAT
44314187 GTT
1 GTT
44314190 GTTAAGATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (16 bp):
GTTTTTTAAGCATCAT
Found at i:44314573 original size:18 final size:18
Alignment explanation
Indices: 44314552--44314591 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44314542 TTTCTTTATA
* *
44314552 AAATCAAAAAGTAAAATT
1 AAATAAAAAACTAAAATT
*
44314570 AAATAAAAAACTAAATTT
1 AAATAAAAAACTAAAATT
44314588 AAAT
1 AAAT
44314592 TGAAAACTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (18 bp):
AAATAAAAAACTAAAATT
Found at i:44317122 original size:40 final size:40
Alignment explanation
Indices: 44317074--44317421 Score: 615
Period size: 40 Copynumber: 8.7 Consensus size: 40
44317064 GCAAACACCT
* * *
44317074 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44317114 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
44317154 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44317194 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44317234 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44317274 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44317314 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44317354 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44317394 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
44317422 TCCAATGCTC
Statistics
Matches: 293, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 293 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:44326021 original size:40 final size:40
Alignment explanation
Indices: 44325976--44326324 Score: 617
Period size: 40 Copynumber: 8.7 Consensus size: 40
44325966 GCAAACACAT
*
44325976 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
44326016 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44326056 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44326096 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44326136 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44326176 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44326216 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44326256 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44326296 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGATATATC
44326325 CCAATGCTCA
Statistics
Matches: 304, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 304 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:44328734 original size:19 final size:19
Alignment explanation
Indices: 44328710--44328748 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44328700 CGGAGAACAA
44328710 TTAGGCCTTACAAAACCTT
1 TTAGGCCTTACAAAACCTT
44328729 TTAGGCCTTACAAAACCTT
1 TTAGGCCTTACAAAACCTT
44328748 T
1 T
44328749 ATCAGTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (19 bp):
TTAGGCCTTACAAAACCTT
Found at i:44345443 original size:78 final size:78
Alignment explanation
Indices: 44345339--44345492 Score: 272
Period size: 78 Copynumber: 2.0 Consensus size: 78
44345329 AGGGGGCCCA
* *
44345339 GGGCCTCTGCCGGCCCCGTATATATATATTGCACCTATTTTCTCACTTCATCTTCATCTTCATCA
1 GGGCCTCTGCCAGCCCCGTAAATATATATTGCACCTATTTTCTCACTTCATCTTCATCTTCATCA
44345404 ACCACTTGTTTCT
66 ACCACTTGTTTCT
* *
44345417 GGGCCTCTGCCAGCCCTGTAAATATATATTGCACCTATTTTCTCTCTTCATCTTCATCTTCATCA
1 GGGCCTCTGCCAGCCCCGTAAATATATATTGCACCTATTTTCTCACTTCATCTTCATCTTCATCA
44345482 ACCACTTGTTT
66 ACCACTTGTTT
44345493 TTCTTTCTCT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.19, C:0.31, G:0.11, T:0.39
Consensus pattern (78 bp):
GGGCCTCTGCCAGCCCCGTAAATATATATTGCACCTATTTTCTCACTTCATCTTCATCTTCATCA
ACCACTTGTTTCT
Found at i:44348269 original size:40 final size:40
Alignment explanation
Indices: 44348221--44348528 Score: 544
Period size: 40 Copynumber: 7.7 Consensus size: 40
44348211 GCAAACACCT
* * *
44348221 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44348261 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
44348301 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44348341 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44348381 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44348421 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44348461 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44348501 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
44348529 TCCAATGCTC
Statistics
Matches: 255, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 255 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:44357145 original size:40 final size:40
Alignment explanation
Indices: 44357097--44357364 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
44357087 GCAAACACCT
* * *
44357097 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44357137 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
44357177 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44357217 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44357257 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44357297 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44357337 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
44357365 TCCAATGCTC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:44365958 original size:40 final size:40
Alignment explanation
Indices: 44365910--44366256 Score: 597
Period size: 40 Copynumber: 8.7 Consensus size: 40
44365900 GCAAACACCT
* * * *
44365910 TTGCCTTCGGGTCTTAACCCAGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44365950 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
44365990 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44366030 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44366070 TTGCCTTC-GGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44366109 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
44366149 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44366189 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
44366229 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
44366257 TCCAATGCTC
Statistics
Matches: 290, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 38 0.13
40 252 0.87
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:44366167 original size:159 final size:160
Alignment explanation
Indices: 44365910--44366257 Score: 617
Period size: 159 Copynumber: 2.2 Consensus size: 160
44365900 GCAAACACCT
* * * * *
44365910 TTGCCTTCGGGTCTTAACCCAGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
44365975 TATCATCTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGG
66 TATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGG
44366040 GTCTTAGCCCGGATATATCAACTCGCATAA
131 GTCTTAGCCCGGATATATCAACTCGCATAA
44366070 TTGCCTTC-GGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
* *
44366134 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTCGG
66 TATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGG
44366199 GTCTTAGCCCGGATATATCAACTCGCATAA
131 GTCTTAGCCCGGATATATCAACTCGCATAA
44366229 TTGCCTTCGGGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGATATATT
44366258 CCAATGCTCA
Statistics
Matches: 179, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
159 151 0.84
160 28 0.16
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (160 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGG
GTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:44378093 original size:43 final size:42
Alignment explanation
Indices: 44378002--44378113 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
44377992 TGAGATTACG
***
44378002 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTTT
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTCCA
* * *
44378044 TTTAAGACCATAGCTGGGTTATTGGCATCGATATGAGA-TCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACT-CCA
44378087 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
44378114 TGGTATGGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTCCA
Found at i:44378224 original size:20 final size:20
Alignment explanation
Indices: 44378196--44378242 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
44378186 CGGCAATGTT
44378196 TAAGTTGTGAAAAACTATGG
1 TAAGTTGTGAAAAACTATGG
* * *
44378216 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAAACTATGG
44378236 TAAGTTG
1 TAAGTTG
44378243 CAAGTTGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAAACTATGG
Found at i:44378838 original size:15 final size:15
Alignment explanation
Indices: 44378810--44378843 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44378800 GTAATTGATG
*
44378810 TGTGGATGACTTGGT
1 TGTGGATGAATTGGT
*
44378825 TGTGGTTGAATTGGT
1 TGTGGATGAATTGGT
44378840 TGTG
1 TGTG
44378844 TATAAATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.41, T:0.44
Consensus pattern (15 bp):
TGTGGATGAATTGGT
Found at i:44378993 original size:121 final size:121
Alignment explanation
Indices: 44378841--44379083 Score: 407
Period size: 121 Copynumber: 2.0 Consensus size: 121
44378831 TGAATTGGTT
* *
44378841 GTGTATAAATGCTTGGATTGGTGTTGCTTGTTGTTGTGTAGGTTGGAGCAAGTAAATGTGGCAAA
1 GTGTATAAATGCTTGGATTGGTGTTGCTTGTTGTGGTGTAGGTTGGAGCAAGTAAAGGTGGC-AA
*
44378906 ATGGCTTGGTAAATAGCCTTATTTTT-TCCACACGGGTAGACACGGGCTTGTGTCTA
65 ATGGCTTGGTAAATAGCCTTATTTTTGTCCACACGGGTAGACACGGGCATGTGTCTA
* *
44378962 GTGTATAAATGCTTGGATTGGTGTTGCTTGTTGTGGTGTAGGTTGGTGCGAGTAAAGGTGGCAAA
1 GTGTATAAATGCTTGGATTGGTGTTGCTTGTTGTGGTGTAGGTTGGAGCAAGTAAAGGTGGCAAA
* *
44379027 TGGCTTGGTAAATAGCCTTATTTTTGTCCATACGGGTAGACACTGGCATGTGTCTA
66 TGGCTTGGTAAATAGCCTTATTTTTGTCCACACGGGTAGACACGGGCATGTGTCTA
44379083 G
1 G
44379084 ACCGTGTGTG
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
120 28 0.25
121 86 0.75
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.35
Consensus pattern (121 bp):
GTGTATAAATGCTTGGATTGGTGTTGCTTGTTGTGGTGTAGGTTGGAGCAAGTAAAGGTGGCAAA
TGGCTTGGTAAATAGCCTTATTTTTGTCCACACGGGTAGACACGGGCATGTGTCTA
Found at i:44379329 original size:41 final size:41
Alignment explanation
Indices: 44379220--44379642 Score: 530
Period size: 41 Copynumber: 10.4 Consensus size: 41
44379210 CGTTTTAAGA
* ** * ***
44379220 AAAACGCTGCTAAAAA-CAGAGCAACAGCGGCGTTTTTTACT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG-CTTTCGGT
* * * * * *
44379261 AAAATGCCTCTAAAAA-TAGATCATTAGCGACGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * * *
44379301 AAAACACCGCTAAAAACTAGATCATTAGCGGCGCTTTGGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
**
44379342 AAAACGCTTCTAAAAACCAGAGCATTAGCGGCGC-TTCGGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTC-GGT
* ** *
44379383 AAAACGCTGCTAAAAAATAGAGCATTAGCGGCGCTTTGGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * *
44379424 AAAATGCCGCTAAAAACTAGAGCATTAGCTGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
44379465 AAAACACCGCTAAAAAACAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
*
44379506 AAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
44379547 AAAAC-CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
*
44379587 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
44379628 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
44379643 GTCATAGAAC
Statistics
Matches: 336, Mismatches: 42, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
40 58 0.17
41 276 0.82
42 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
Found at i:44382181 original size:47 final size:47
Alignment explanation
Indices: 44382123--44382372 Score: 369
Period size: 47 Copynumber: 5.3 Consensus size: 47
44382113 TGTACAAGTA
* *
44382123 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
44382170 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
44382217 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
44382264 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* *
44382311 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
44382358 TATAAATGTGATAAG
1 TATATATGTGATAAG
44382373 TCCCGAAGGG
Statistics
Matches: 188, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.01
47 184 0.98
48 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:44382250 original size:22 final size:22
Alignment explanation
Indices: 44382223--44382344 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
44382213 CATGTGTATG
44382223 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
44382245 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
44382270 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
44382292 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
44382317 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
44382339 TGTGAT
1 TGTGAT
44382345 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:44384450 original size:36 final size:39
Alignment explanation
Indices: 44384380--44384455 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
44384370 ATAGTTTAAG
* *
44384380 ATATATGGTTTAAGGTTTAAGCAGGTTTATGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
44384419 ATATATGGTTTAAGATTT-A-C-GGTTTAGGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
44384455 A
1 A
44384456 GTAATTGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
36 16 0.46
37 1 0.03
38 1 0.03
39 17 0.49
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (39 bp):
ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
Found at i:44384935 original size:21 final size:22
Alignment explanation
Indices: 44384911--44384961 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
44384901 GATTGATTTT
44384911 GGGGTTTAAAGTTTG-GGGTTA
1 GGGGTTTAAAGTTTGTGGGTTA
*** *
44384932 GGGGTTTTGTGTTTGTGGTTTA
1 GGGGTTTAAAGTTTGTGGGTTA
44384954 GGGGTTTA
1 GGGGTTTA
44384962 GGGGTTTAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.12, C:0.00, G:0.43, T:0.45
Consensus pattern (22 bp):
GGGGTTTAAAGTTTGTGGGTTA
Found at i:44388487 original size:133 final size:133
Alignment explanation
Indices: 44388248--44388499 Score: 450
Period size: 133 Copynumber: 1.9 Consensus size: 133
44388238 TGGTGATTCC
* *
44388248 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCTAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
* *
44388313 TGGACTTAGATTGATTTAAGAGTTTAATGTTGTCTTATTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTGCCTTATTGCTCACGTTTTATATAATAAAATTGT
44388378 TAT
131 TAT
44388381 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
* *
44388446 TGGACTTAGATTGATTTAAGAGTTTATTGCTGCCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTGCCTTATTGCTCACGTTTTATAT
44388500 TGTTGAATTC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 113 1.00
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTAATGCTGCCTTATTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:44396167 original size:45 final size:43
Alignment explanation
Indices: 44396094--44396448 Score: 340
Period size: 43 Copynumber: 8.2 Consensus size: 43
44396084 CTGGGCAAAT
* * *
44396094 TAGCGGCGTTTTTTACAAAAGAGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* *
44396137 TAACGGCGTTTTTTATATAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTT-TATAAAAGCGCCGCTAAAAGTACTGGTCTA
*
44396182 TAGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-TGGTCTA
* * * *
44396225 TAGAGGCGTTTTTTTACAAAAGCGCCGTTAAAAGTACAGGTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
** * * * *
44396269 TAATGGCATTTTTTATATAAAAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGC-GTTTTT-TATAAAAGCGCCGCTAAAAGTACTGGTCTA
* * * *
44396314 TAGCGGCG-CTTTTATAAAAAACGCCGCTAAAAGTCCTGGTCTT
1 TAGCGGCGTTTTTTAT-AAAAGCGCCGCTAAAAGTACTGGTCTA
* * * * *
44396357 TGGCGGCG-CTTTTATAAAATACGCCGCTAAAAGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAA-GCGCCGCTAAAAGTACTGGTCTA
* * * * *
44396400 TGGCGGCGTTTTTT-TAAGAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
44396442 TAGCGGC
1 TAGCGGC
44396449 ACTTGTATAA
Statistics
Matches: 270, Mismatches: 32, Indels: 21
0.84 0.10 0.07
Matches are distributed among these distances:
42 40 0.15
43 112 0.41
44 48 0.18
45 70 0.26
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
Found at i:44396339 original size:132 final size:130
Alignment explanation
Indices: 44396098--44396468 Score: 430
Period size: 132 Copynumber: 2.8 Consensus size: 130
44396088 GCAAATTAGC
*
44396098 GGCGTTTTTTACAAAAGAGCCGCTAAAAGTACAGGTCTATAACGGCGTTTTTTATATAAAAGCGC
1 GGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAACGGC-TTTTTTATATAAAAGCGC
* * * * * * *
44396163 CGCTAAAAGTACAGGTCTATAGCGGCG-TTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTAT
65 CGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATA-AAAAACGCCGCTAAAAG-TCCTGGTCTAT
44396226 AGA
128 AGA
* *
44396229 GGCGTTTTTTTACAAAAGCGCCGTTAAAAGTACAGGTCTATAATGGCATTTTTTATATAAAAGCG
1 GGCG-TTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAACGGC-TTTTTTATATAAAAGCG
* *
44396294 CCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAGTCCTGGTCTTTG
64 CCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAGTCCTGGTCTATA
*
44396359 GC
129 GA
* * * * ** * *
44396361 GGCGCTTTTATA-AAATA-CGCCGCTAAAAGTCCTGGTCTTTGGCGGCGTTTTT-T-TAAGAGCG
1 GGCG-TTTTTTACAAA-AGCGCCGCTAAAAGTACAGGTCTATAACGGCTTTTTTATATAAAAGCG
* *
44396422 CCGCTAAAGGTCCTGGTCTTTAGCGGCACTTGTATAAAAAACGCCGC
64 CCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGC
44396469 GAAGTTTTGT
Statistics
Matches: 209, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
128 52 0.25
129 1 0.00
130 5 0.02
131 29 0.14
132 112 0.54
133 10 0.05
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (130 bp):
GGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAACGGCTTTTTTATATAAAAGCGCC
GCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAGTCCTGGTCTATAGA
Found at i:44396441 original size:85 final size:85
Alignment explanation
Indices: 44396116--44396468 Score: 287
Period size: 87 Copynumber: 4.1 Consensus size: 85
44396106 TTACAAAAGA
* * * * * * * *
44396116 GCCGCTAAAAGTACAGGTCTATAACGGCGTTTTTTATATAAAAGCGCCGCTAAAAGTACAGGTCT
1 GCCGCTAAAAGTCCTGGTCTTTAGCGGCG-CTTTTATA-AAAAACGCCGCTAAAAGTCCTGGTCT
* ** *
44396181 ATAGCGGCGTTTTTTATAAAAGC
64 TTAGCGGC-ACTTTTATAAAAAC
* * * * * * * * *
44396204 GCCGCT-AAAGTTCTTGGTCTATAGAGGCGTTTTTTTACAAAAGCGCCGTTAAAAGTACAGGTCT
1 GCCGCTAAAAG-TCCTGGTCTTTAGCGGCGCTTTTATA-AAAAACGCCGCTAAAAGTCCTGGTCT
* ** *
44396268 ATAATGGCATTTTTTATATAAAAGC
64 TTAGCGGCA-CTTTTATA-AAAA-C
*
44396293 GCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAGTCCTGGTCTTT
1 GCCGCTAAAAGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAGTCCTGGTCTTT
* *
44396358 GGCGGCGCTTTTATAAAATAC
66 AGCGGCACTTTTATAAAA-AC
* * * * * *
44396379 GCCGCTAAAAGTCCTGGTCTTTGGCGGCG-TTTTTTTAAGAGCGCCGCTAAAGGTCCTGGTCTTT
1 GCCGCTAAAAGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAGTCCTGGTCTTT
*
44396443 AGCGGCACTTGTATAAAAAAC
66 AGCGGCACTTTTAT-AAAAAC
44396464 GCCGC
1 GCCGC
44396469 GAAGTTTTGT
Statistics
Matches: 220, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
85 48 0.22
86 35 0.16
87 58 0.26
88 48 0.22
89 28 0.13
90 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (85 bp):
GCCGCTAAAAGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAGTCCTGGTCTTT
AGCGGCACTTTTATAAAAAC
Found at i:44399182 original size:48 final size:48
Alignment explanation
Indices: 44399129--44399221 Score: 143
Period size: 48 Copynumber: 1.9 Consensus size: 48
44399119 ACAAATATTT
* * *
44399129 TTATACTAATAAAT-GTCAAATATATTATGCTAATAAATGCTAAATATA
1 TTATACTAATAAATAAT-AAATATATTATACTAATAAATACTAAATATA
44399177 TTATACTAATAAATAATAAATATATTATACTAATAAATACTAAAT
1 TTATACTAATAAATAATAAATATATTATACTAATAAATACTAAAT
44399222 CTTCTAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 40 0.98
49 1 0.02
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.38
Consensus pattern (48 bp):
TTATACTAATAAATAATAAATATATTATACTAATAAATACTAAATATA
Found at i:44399215 original size:24 final size:24
Alignment explanation
Indices: 44399114--44399221 Score: 128
Period size: 24 Copynumber: 4.5 Consensus size: 24
44399104 AATATGAAAA
* *
44399114 AAATAACAAATATTTTTATACTAAT
1 AAATAATAAATA-TATTATACTAAT
* *
44399139 AAAT-GTCAAATATATTATGCTAAT
1 AAATAAT-AAATATATTATACTAAT
**
44399163 AAATGCTAAATATATTATACTAAT
1 AAATAATAAATATATTATACTAAT
44399187 AAATAATAAATATATTATACTAAT
1 AAATAATAAATATATTATACTAAT
*
44399211 AAATACTAAAT
1 AAATAATAAAT
44399222 CTTCTAGAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
24 62 0.86
25 10 0.14
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (24 bp):
AAATAATAAATATATTATACTAAT
Found at i:44399495 original size:49 final size:49
Alignment explanation
Indices: 44399423--44399565 Score: 205
Period size: 49 Copynumber: 2.9 Consensus size: 49
44399413 GAGAAGTCTA
* * *
44399423 CCTACATCCACGGTGCAGTTATTCTGCAAAATATAGTACAATAAAGCTG
1 CCTACATCCATGGTGCTGTTATTCTGAAAAATATAGTACAATAAAGCTG
* * *
44399472 CCTACATCCATGGTCCTGTTATTCTAAAAAATATAGTATAATAAAGCTG
1 CCTACATCCATGGTGCTGTTATTCTGAAAAATATAGTACAATAAAGCTG
* * *
44399521 CCTACATCCATGATGTTGTTATTTTGAAAAATATAGTACAATAAA
1 CCTACATCCATGGTGCTGTTATTCTGAAAAATATAGTACAATAAA
44399566 ACTACCTTGA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.31
Consensus pattern (49 bp):
CCTACATCCATGGTGCTGTTATTCTGAAAAATATAGTACAATAAAGCTG
Found at i:44399961 original size:23 final size:21
Alignment explanation
Indices: 44399933--44399992 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
44399923 GAAGGAAACT
44399933 AGAAAGGAGAAAACAAAGGAAG
1 AGAAAGGAGAAAACAAA-GAAG
* * *
44399955 AAGAAAGAAGAAATCCAAGAAG
1 -AGAAAGGAGAAAACAAAGAAG
44399977 AGAAA-GAGAAAACAAA
1 AGAAAGGAGAAAACAAA
44399993 CTTGATAGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 8 0.26
21 5 0.16
22 4 0.13
23 14 0.45
ACGTcount: A:0.67, C:0.07, G:0.25, T:0.02
Consensus pattern (21 bp):
AGAAAGGAGAAAACAAAGAAG
Found at i:44402960 original size:43 final size:43
Alignment explanation
Indices: 44402909--44403165 Score: 245
Period size: 43 Copynumber: 6.0 Consensus size: 43
44402899 AAACAGTTTT
* * *
44402909 ATAAGTTGTGTAATAAGAAAAGCTCTCCTCATGAGTTTAAGTG
1 ATAAGTTGTGTAATCAGAAAAGCTCCCCTCATGAGCTTAAGTG
* * * * *
44402952 ATAAGTTGTGTAATTAGCAAAA-TTCCCTTCATGAACTTAAATG
1 ATAAGTTGTGTAATCAG-AAAAGCTCCCCTCATGAGCTTAAGTG
* ** * *
44402995 ATAAGCTGTGTAATCAGCGAAGCTCCCCTCCTAAGCTTAAGTG
1 ATAAGTTGTGTAATCAGAAAAGCTCCCCTCATGAGCTTAAGTG
* ** *
44403038 ATAAGTTGTGTCATCAGTGAAGCT-CTCTCATGAGCTTAAGTG
1 ATAAGTTGTGTAATCAGAAAAGCTCCCCTCATGAGCTTAAGTG
* * * *
44403080 ATAAATAGTGTAACCAGTAAAGCTCCCCTCATGAGCTTAAGTG
1 ATAAGTTGTGTAATCAGAAAAGCTCCCCTCATGAGCTTAAGTG
* *
44403123 ATAA-TCTGTGT-ATCA-ACGAAGCTCCCCGCATGAGCTTAAGTG
1 ATAAGT-TGTGTAATCAGA-AAAGCTCCCCTCATGAGCTTAAGTG
44403165 A
1 A
44403166 CAACCTTTGT
Statistics
Matches: 175, Mismatches: 34, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
42 64 0.37
43 107 0.61
44 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (43 bp):
ATAAGTTGTGTAATCAGAAAAGCTCCCCTCATGAGCTTAAGTG
Found at i:44403177 original size:42 final size:42
Alignment explanation
Indices: 44403099--44403207 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
44403089 GTAACCAGTA
* * *
44403099 AAGCTCCCCTCATGAGCTTAAGTGATAATCTGTGTATCAACG
1 AAGCTCCCCACATGAGCTTAAGTGACAACCTGTGTATCAACG
* * *
44403141 AAGCTCCCCGCATGAGCTTAAGTGACAACCTTTGTATCAGCG
1 AAGCTCCCCACATGAGCTTAAGTGACAACCTGTGTATCAACG
* **
44403183 AACCTCCCCATGTGAGCTTAAGTGA
1 AAGCTCCCCACATGAGCTTAAGTGA
44403208 TTGTGCTCCT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (42 bp):
AAGCTCCCCACATGAGCTTAAGTGACAACCTGTGTATCAACG
Found at i:44408831 original size:23 final size:23
Alignment explanation
Indices: 44408811--44408880 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 23
44408801 TGTAAAGCTG
*
44408811 TTGTGGCATATTTTGTGAAGCCT
1 TTGTGGCATATTCTGTGAAGCCT
* *
44408834 TTGTGGCACATTCTGTGGAGCCT
1 TTGTGGCATATTCTGTGAAGCCT
* *
44408857 TTGTGGAATATTCT-TGGAGCCT
1 TTGTGGCATATTCTGTGAAGCCT
44408879 TT
1 TT
44408881 ATGACTTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 10 0.24
23 32 0.76
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (23 bp):
TTGTGGCATATTCTGTGAAGCCT
Found at i:44413407 original size:40 final size:40
Alignment explanation
Indices: 44413357--44413492 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
44413347 ATGCTCTTTA
* * * **
44413357 TTTGGCGTGTTCCGATTGGATCAGCTCTTATGCTCTTCTG
1 TTTGGAGTGTTTCGATTGGATAAGCTCTTATGAGCTTCTG
44413397 TTTGGAGTGTTTCGATTGGATAAGCTCTTATGAGCTTCTG
1 TTTGGAGTGTTTCGATTGGATAAGCTCTTATGAGCTTCTG
* * * *
44413437 CTT-GACGTGTTTCGATTGGATTAGCTTTTATGAGCTTTTG
1 TTTGGA-GTGTTTCGATTGGATAAGCTCTTATGAGCTTCTG
*
44413477 TTTGGTGTG-TTCGATT
1 TTTGGAGTGTTTCGATT
44413493 TATCTGACCA
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 9 0.11
40 73 0.88
41 1 0.01
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (40 bp):
TTTGGAGTGTTTCGATTGGATAAGCTCTTATGAGCTTCTG
Found at i:44426525 original size:26 final size:26
Alignment explanation
Indices: 44426489--44426542 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
44426479 TACAACAGGT
* * *
44426489 CTGATTTTTTCTTTAATTTCATGTGG
1 CTGATTCTTTCTATAATTTCATATGG
44426515 CTGATTCTTTCTATAATTTCATATGG
1 CTGATTCTTTCTATAATTTCATATGG
44426541 CT
1 CT
44426543 CGATGAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.15, G:0.13, T:0.54
Consensus pattern (26 bp):
CTGATTCTTTCTATAATTTCATATGG
Found at i:44429225 original size:27 final size:27
Alignment explanation
Indices: 44429177--44429335 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
44429167 GTGAGGCTGC
* *
44429177 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
44429204 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
44429230 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
** * *
44429257 CAGATAATCATTGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
44429284 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
44429311 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
44429336 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:44429277 original size:54 final size:54
Alignment explanation
Indices: 44429219--44429335 Score: 207
Period size: 54 Copynumber: 2.2 Consensus size: 54
44429209 ATTGTGGTAG
*
44429219 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATTGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCAT
**
44429273 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCAT
44429327 AGCCACCAG
1 AGCCACCAG
44429336 GACGCTTCCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (54 bp):
AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCAT
Found at i:44436513 original size:50 final size:48
Alignment explanation
Indices: 44436387--44436735 Score: 484
Period size: 48 Copynumber: 7.1 Consensus size: 48
44436377 ACACATCGCC
*
44436387 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
44436435 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
44436485 TATATATTTCACATT-GACCATTTGGCTTTACCACATATGCATGTCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
44436533 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * **
44436583 TATATATTTCACATTAACCATTTAGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
44436635 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
44436683 TACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
44436731 TACAT
1 TACAT
44436736 CAATTTCAGC
Statistics
Matches: 272, Mismatches: 21, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
48 139 0.51
49 2 0.01
50 85 0.31
52 46 0.17
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:44436540 original size:98 final size:98
Alignment explanation
Indices: 44436390--44436735 Score: 509
Period size: 98 Copynumber: 3.5 Consensus size: 98
44436380 CATCGCCTAC
* *
44436390 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
44436455 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* * *
44436488 ATATTTCACATT-GACCATTTGGCTTTACCACATATGCATGTCTCATACATATTTCACATTAGCC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCC
44436552 ATTCGGCTTTACCACATATACATATCTCATATAT
65 ATTCGGCTTTACCACATATACATATCTCATATAT
* ** * *
44436586 ATATTTCACATTAACCATTTAGCTTTACCACATATACATATCTCATATATATATATTTCGCATTA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTA
*
44436651 GCCATTCGGCTTTACCACATATACATATCTC--ATAC
62 GCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
44436686 ATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTTATACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
44436736 CAATTTCAGC
Statistics
Matches: 224, Mismatches: 18, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
96 5 0.02
97 1 0.00
98 130 0.58
100 42 0.19
102 46 0.21
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:44447815 original size:25 final size:26
Alignment explanation
Indices: 44447770--44447821 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
44447760 TCTTATCACT
*
44447770 TTTTGAAATTAAATATTTTTTATTAA
1 TTTTGAAAATAAATATTTTTTATTAA
*
44447796 TTTT-AAAATAAAT-TTATTTTTTTAA
1 TTTTGAAAATAAATATT-TTTTATTAA
44447821 T
1 T
44447822 ATTCTCCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 17 0.74
26 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTGAAAATAAATATTTTTTATTAA
Found at i:44456205 original size:13 final size:13
Alignment explanation
Indices: 44456187--44456230 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
44456177 TAAAGGTGTA
44456187 ATATGAAATGGTT
1 ATATGAAATGGTT
*
44456200 ATATGAGATGGTT
1 ATATGAAATGGTT
*
44456213 AT-TCGAAATGATT
1 ATAT-GAAATGGTT
44456226 ATATG
1 ATATG
44456231 GATAGATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (13 bp):
ATATGAAATGGTT
Found at i:44458783 original size:54 final size:54
Alignment explanation
Indices: 44458712--44458815 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
44458702 TCGAATTTGG
* **
44458712 GACACACGATCGAGTCCCAACCCATGTCTCTGCCCATATAACTCTCTGACATGA
1 GACACACGATCCAGTCCCAACCCATGTCTCAACCCATATAACTCTCTGACATGA
* * * *
44458766 GACACACGA-CCATGTCCCAGCCCGTGTCTCAACCCGTGTAACTCTCTGAC
1 GACACACGATCCA-GTCCCAACCCATGTCTCAACCCATATAACTCTCTGAC
44458816 TTGGATCACA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.05
54 40 0.95
ACGTcount: A:0.25, C:0.38, G:0.16, T:0.21
Consensus pattern (54 bp):
GACACACGATCCAGTCCCAACCCATGTCTCAACCCATATAACTCTCTGACATGA
Found at i:44464859 original size:21 final size:22
Alignment explanation
Indices: 44464826--44464866 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
44464816 AAGATCCTGG
44464826 TTTATTCAGTTTT-ATTTTAGA
1 TTTATTCAGTTTTAATTTTAGA
**
44464847 TTTATTCTTTTTTAATTTTA
1 TTTATTCAGTTTTAATTTTA
44464867 TGGATTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTATTCAGTTTTAATTTTAGA
Found at i:44465636 original size:15 final size:15
Alignment explanation
Indices: 44465616--44465644 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44465606 TTATTATAAT
44465616 TGTGTGTATATATTG
1 TGTGTGTATATATTG
44465631 TGTGTGTATATATT
1 TGTGTGTATATATT
44465645 TTATATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (15 bp):
TGTGTGTATATATTG
Found at i:44466896 original size:50 final size:50
Alignment explanation
Indices: 44466821--44466929 Score: 200
Period size: 50 Copynumber: 2.2 Consensus size: 50
44466811 TATTCAACTA
44466821 TTATTATATTCGCCAACATCACTGTATGTTGTTTTGGGATAAATATATAC
1 TTATTATATTCGCCAACATCACTGTATGTTGTTTTGGGATAAATATATAC
44466871 TTATTATATTCGCCAACATCACTGTATGTTGTTTTGGGATAAATATATAC
1 TTATTATATTCGCCAACATCACTGTATGTTGTTTTGGGATAAATATATAC
*
44466921 ATATATATA
1 TTAT-TATA
44466930 CTATTATCTT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
50 53 0.93
51 4 0.07
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (50 bp):
TTATTATATTCGCCAACATCACTGTATGTTGTTTTGGGATAAATATATAC
Found at i:44469622 original size:31 final size:31
Alignment explanation
Indices: 44469580--44469687 Score: 182
Period size: 31 Copynumber: 3.5 Consensus size: 31
44469570 TAGCTTTGGA
*
44469580 GGGC-CACACGCCCTTGTGTGTGGGCCGTGT
1 GGGCGCACACGCCCGTGTGTGTGGGCCGTGT
*
44469610 GGGCGCACACGCCCGTGTGTGTAGGCCGTGT
1 GGGCGCACACGCCCGTGTGTGTGGGCCGTGT
*
44469641 GGGCGCACACGCCAGTGTGTGTGGGCCGTGT
1 GGGCGCACACGCCCGTGTGTGTGGGCCGTGT
44469672 GGGCGCACACGCCCGT
1 GGGCGCACACGCCCGT
44469688 ATATCATTGG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
30 4 0.06
31 68 0.94
ACGTcount: A:0.09, C:0.31, G:0.42, T:0.19
Consensus pattern (31 bp):
GGGCGCACACGCCCGTGTGTGTGGGCCGTGT
Found at i:44473053 original size:41 final size:41
Alignment explanation
Indices: 44472946--44473077 Score: 149
Period size: 43 Copynumber: 3.1 Consensus size: 41
44472936 CTTTCGAGTT
*
44472946 GTGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGATA
1 GTGATTT-GTGTAAGACCATGTCTGGGACATTGGCATCGATA
* * *
44472988 GGAGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATA
1 -GTGATT-TGTGTAAGACCATGTCTGGGACATTGGCATCG-ATA
* **
44473032 -TGATTTGTGTAAGACCCTGTCTGGGACAGAGGCATCGATA
1 GTGATTTGTGTAAGACCATGTCTGGGACATTGGCATCGATA
44473072 CGTGAT
1 -GTGAT
44473078 AGCATGTACG
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
40 3 0.04
41 27 0.36
42 8 0.11
43 34 0.45
44 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (41 bp):
GTGATTTGTGTAAGACCATGTCTGGGACATTGGCATCGATA
Found at i:44487489 original size:18 final size:18
Alignment explanation
Indices: 44487466--44487523 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
44487456 TTATGTATTT
44487466 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
44487484 AATGTAA-AC-AATTTTC
1 AATGTAATTCTAATATAG
*
44487500 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
44487518 AATGTA
1 AATGTA
44487524 CTTGTTTTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
16 10 0.36
17 2 0.07
18 16 0.57
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:44487911 original size:22 final size:23
Alignment explanation
Indices: 44487886--44487930 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
44487876 TATGTTGAGT
44487886 AAATTA-ATATAAAAT-AATAATA
1 AAATTATA-ATAAAATAAATAATA
*
44487908 AAATTATAATAAATTAAATAATA
1 AAATTATAATAAAATAAATAATA
44487931 TTCTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATTATAATAAAATAAATAATA
Found at i:44488012 original size:13 final size:13
Alignment explanation
Indices: 44487935--44488013 Score: 54
Period size: 13 Copynumber: 5.7 Consensus size: 13
44487925 ATAATATTCT
44487935 TATATTAATTATAAA
1 TATA-TAATTA-AAA
44487950 TATAATATATATATAAA
1 TAT-ATA-AT-TA-AAA
*
44487967 -ATATAATTAACA
1 TATATAATTAAAA
*
44487979 TA-ATTATTAAATA
1 TATATAATTAAA-A
*
44487992 TATTTAATTAAAA
1 TATATAATTAAAA
44488005 TATATAATT
1 TATATAATT
44488014 TAATGAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
12 9 0.17
13 15 0.29
14 9 0.17
15 8 0.15
16 5 0.10
17 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATAATTAAAA
Found at i:44488129 original size:18 final size:17
Alignment explanation
Indices: 44488108--44488142 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44488098 TTATTATTAA
*
44488108 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44488126 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44488143 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44488136 original size:120 final size:120
Alignment explanation
Indices: 44487926--44488353 Score: 747
Period size: 120 Copynumber: 3.7 Consensus size: 120
44487916 ATAAATTAAA
44487926 TAATATTCTTATATTAA-TTA-T-AAAT-ATAATATAT-ATA---TAAAATAT-AATTAACAT-A
1 TAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAA
44487981 --ATTATTAAATATA-TTTAATTAAAATATATAATTTAATGAAATTCTTAATAAT
66 TTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAAT
44488033 TAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAA
1 TAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAA
*
44488098 TTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
66 TTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAAT
*
44488153 TAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAA
1 TAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAA
44488218 TTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAAT
66 TTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAAT
44488273 TAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAA
1 TAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAA
44488338 TTATTATTAAATATAT
66 TTATTATTAAATATAT
44488354 AACTTGAAAA
Statistics
Matches: 304, Mismatches: 4, Indels: 13
0.95 0.01 0.04
Matches are distributed among these distances:
107 17 0.06
108 3 0.01
109 1 0.00
110 4 0.01
111 9 0.03
112 3 0.01
115 8 0.03
116 9 0.03
117 1 0.00
119 13 0.04
120 236 0.78
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAA
TTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAAT
Found at i:44488704 original size:18 final size:18
Alignment explanation
Indices: 44488681--44488740 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
44488671 TTAAAACAAG
44488681 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
44488699 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
44488716 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
44488734 TTACATT
1 TTACATT
44488741 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:44490293 original size:33 final size:33
Alignment explanation
Indices: 44490251--44490316 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
44490241 TTCTTCAAGA
44490251 AGCAGAACAAGGCGAAACATGTCAATCTAAGGG
1 AGCAGAACAAGGCGAAACATGTCAATCTAAGGG
44490284 AGCAGAACAAGGCGAAACATGTCAATCTAAGGG
1 AGCAGAACAAGGCGAAACATGTCAATCTAAGGG
44490317 CCTTGGAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.12
Consensus pattern (33 bp):
AGCAGAACAAGGCGAAACATGTCAATCTAAGGG
Found at i:44496953 original size:19 final size:20
Alignment explanation
Indices: 44496929--44496969 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
44496919 TATATAATTT
44496929 TTTA-TTTTATTAAATA-ATA
1 TTTATTTTTA-TAAATATATA
44496948 TTTATTTTTATAAATATATA
1 TTTATTTTTATAAATATATA
44496968 TT
1 TT
44496970 AATTAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATTTTTATAAATATATA
Found at i:44496956 original size:20 final size:19
Alignment explanation
Indices: 44496906--44496969 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
44496896 AAAATCTAAA
*
44496906 ATTTATTTTTAACTATATAAT
1 ATTTATTTTT-A-TAAATAAT
*
44496927 -TTTTTATTTTATTAAATAAT
1 ATTTAT-TTTTA-TAAATAAT
44496947 ATTTATTTTTATAAATATAT
1 ATTTATTTTTATAAATA-AT
44496967 ATT
1 ATT
44496970 AATTAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
19 6 0.17
20 22 0.61
21 8 0.22
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTATTTTTATAAATAAT
Found at i:44502637 original size:5 final size:5
Alignment explanation
Indices: 44502629--44502659 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
44502619 GGAGGGGAAC
44502629 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG G
1 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG G
44502660 CGAGGAAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.61, T:0.39
Consensus pattern (5 bp):
GTTGG
Found at i:44503202 original size:17 final size:17
Alignment explanation
Indices: 44503182--44503214 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44503172 CTTTCTCTAA
44503182 TTATT-TTTCCTACCCTT
1 TTATTATTTCCT-CCCTT
44503199 TTATTATTTCCTCCCT
1 TTATTATTTCCTCCCT
44503215 AGTTTCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.30, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTATTTCCTCCCTT
Found at i:44505400 original size:23 final size:23
Alignment explanation
Indices: 44505351--44505399 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
44505341 AAAATACATC
44505351 AAAAGACTCTCAAACTTTTTTCA
1 AAAAGACTCTCAAACTTTTTTCA
* *
44505374 AAAAGACTCTTAATC-TTTTTCA
1 AAAAGACTCTCAAACTTTTTTCA
44505396 AAAA
1 AAAA
44505400 AAAATTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (23 bp):
AAAAGACTCTCAAACTTTTTTCA
Found at i:44505678 original size:19 final size:19
Alignment explanation
Indices: 44505626--44505680 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
44505616 TTTAATTTTT
*
44505626 ATTA-AAAAT-TATAAAAA
1 ATTATAAAATATATAGAAA
*
44505643 ATTATAAAA-ATCGTAGAAA
1 ATTATAAAATAT-ATAGAAA
44505662 ATTATAAAATATATAGAAA
1 ATTATAAAATATATAGAAA
44505681 TATAGAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 4 0.13
18 5 0.16
19 20 0.65
20 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
ATTATAAAATATATAGAAA
Found at i:44505967 original size:17 final size:17
Alignment explanation
Indices: 44505947--44505983 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
44505937 TTTTTATAAA
44505947 TTTTACAATTT-TAATAT
1 TTTTACAATTTAT-ATAT
44505964 TTTTACAATTTATATAT
1 TTTTACAATTTATATAT
44505981 TTT
1 TTT
44505984 AATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTACAATTTATATAT
Found at i:44506005 original size:13 final size:14
Alignment explanation
Indices: 44505981--44506010 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
44505971 ATTTATATAT
44505981 TTTAATTTTTTAAA
1 TTTAATTTTTTAAA
44505995 TTTAA-TTTTTAAA
1 TTTAATTTTTTAAA
44506008 TTT
1 TTT
44506011 TTACTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTAATTTTTTAAA
Found at i:44506065 original size:9 final size:9
Alignment explanation
Indices: 44505917--44506066 Score: 56
Period size: 9 Copynumber: 17.4 Consensus size: 9
44505907 TTTTGATGCA
44505917 TTTTATAACTT
1 TTTTATAA--T
*
44505928 TTTTAATGAT
1 TTTT-ATAAT
*
44505938 TTTTATAAA
1 TTTTATAAT
*
44505947 TTTTACAAT
1 TTTTATAAT
*
44505956 TTTAAT-AT
1 TTTTATAAT
*
44505964 TTTTACAA-
1 TTTTATAAT
44505972 -TTTAT-AT
1 TTTTATAAT
*
44505979 ATTT-TAAT
1 TTTTATAAT
44505987 TTTT-TAA-
1 TTTTATAAT
*
44505994 -ATT-TAAT
1 TTTTATAAT
44506001 TTTTA-AAT
1 TTTTATAAT
*
44506009 TTTTACTAAAG
1 TTTTA-T-AAT
*
44506020 TTTAATAAT
1 TTTTATAAT
*
44506029 TTTTATAAC
1 TTTTATAAT
*
44506038 TTTTATTGA-
1 TTTTA-TAAT
44506047 TTTTAT--T
1 TTTTATAAT
44506054 TTTTATAAT
1 TTTTATAAT
44506063 TTTT
1 TTTT
44506067 TGTCACATGT
Statistics
Matches: 105, Mismatches: 19, Indels: 32
0.67 0.12 0.21
Matches are distributed among these distances:
6 6 0.06
7 11 0.10
8 28 0.27
9 39 0.37
10 8 0.08
11 10 0.10
12 3 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:44510114 original size:16 final size:16
Alignment explanation
Indices: 44510093--44510126 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
44510083 ATCAACACGT
44510093 GTTAGTGCATTCATAC
1 GTTAGTGCATTCATAC
44510109 GTTAGTGCATTCATAC
1 GTTAGTGCATTCATAC
44510125 GT
1 GT
44510127 AATTCACGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (16 bp):
GTTAGTGCATTCATAC
Found at i:44530058 original size:5 final size:5
Alignment explanation
Indices: 44530050--44530080 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
44530040 GGAGGGGAAC
44530050 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG G
1 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG G
44530081 CGAGGAAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.61, T:0.39
Consensus pattern (5 bp):
GTTGG
Found at i:44530625 original size:17 final size:17
Alignment explanation
Indices: 44530605--44530637 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44530595 CTTTCTCTAA
44530605 TTATT-TTTCCTACCCTT
1 TTATTATTTCCT-CCCTT
44530622 TTATTATTTCCTCCCT
1 TTATTATTTCCTCCCT
44530638 AGTTTCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.30, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTATTTCCTCCCTT
Found at i:44532838 original size:23 final size:23
Alignment explanation
Indices: 44532786--44532837 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
44532776 CTAAAATACA
44532786 TCAAAAAGACTCTCAAACTTTTT
1 TCAAAAAGACTCTCAAACTTTTT
* *
44532809 TCAAAAAGACTCTTAATC-TTTT
1 TCAAAAAGACTCTCAAACTTTTT
44532831 TCAAAAA
1 TCAAAAA
44532838 AAAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (23 bp):
TCAAAAAGACTCTCAAACTTTTT
Found at i:44533119 original size:19 final size:19
Alignment explanation
Indices: 44533067--44533121 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
44533057 TTTAATTTTT
*
44533067 ATTA-AAAAT-TATAAAAA
1 ATTATAAAATATATAGAAA
*
44533084 ATTATAAAA-ATCGTAGAAA
1 ATTATAAAATAT-ATAGAAA
44533103 ATTATAAAATATATAGAAA
1 ATTATAAAATATATAGAAA
44533122 TATAGAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 4 0.13
18 5 0.16
19 20 0.65
20 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
ATTATAAAATATATAGAAA
Found at i:44533377 original size:21 final size:21
Alignment explanation
Indices: 44533351--44533393 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
44533341 TGGTTAAATG
*
44533351 ACTTTTTTGATGCA-TTTTATA
1 ACTTTTTTAATG-ATTTTTATA
44533372 ACTTTTTTAATGATTTTTATA
1 ACTTTTTTAATGATTTTTATA
44533393 A
1 A
44533394 AATTTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (21 bp):
ACTTTTTTAATGATTTTTATA
Found at i:44533424 original size:18 final size:21
Alignment explanation
Indices: 44533396--44533436 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
44533386 TTTTATAAAA
44533396 TTTTACAAATTT-TA-ATATT
1 TTTTACAAATTTATATATATT
44533415 TTTTAC-AATTTATATATATT
1 TTTTACAAATTTATATATATT
44533435 TT
1 TT
44533437 AATTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 8 0.40
20 7 0.35
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTACAAATTTATATATATT
Done.