Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 190 of 203
Found at i:60485913 original size:80 final size:80
Alignment explanation
Indices: 60485669--60485919 Score: 310
Period size: 80 Copynumber: 3.1 Consensus size: 80
60485659 ACCCTTATAA
* * * *
60485669 GGTAAAATGACCGTAATACCCTTGTAGGGTGAAATGACTATAATGCCCCTATAGGGTAAAATAAC
1 GGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACTATAATGCCCCTGTAGGGTAAAATGAC
*
60485734 CGTAATACCACTGTAG
66 TGTAATACC-CTGTAG
* ** * * *
60485750 GGTAAACTGATTGTAATGCCCCTGTAGAGTAAAATGACTGTAATGCCCCTGTAGGGTAAAATGAC
1 GGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACTATAATGCCCCTGTAGGGTAAAATGAC
*
60485815 T-AAATACCCATGTAG
66 TGTAATACCC-TGTAG
* * *
60485830 GGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCATAATACCCCTGTAGGGTAAAATGAT
1 GGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACTATAATGCCCCTGTAGGGTAAAATGAC
*
60485895 TGTAATGCCCTGGT-G
66 TGTAATACCCT-GTAG
60485910 GGT-AAATGAC
1 GGTAAAATGAC
60485920 TATTTTTGCC
Statistics
Matches: 144, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
79 8 0.06
80 73 0.51
81 63 0.44
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (80 bp):
GGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACTATAATGCCCCTGTAGGGTAAAATGAC
TGTAATACCCTGTAG
Found at i:60485992 original size:24 final size:24
Alignment explanation
Indices: 60485964--60486024 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
60485954 TCTGTGGTTA
60485964 AATGACTGATTTTTCTGTG-TCTGG
1 AATGACTGATTTTTCTGTGAT-TGG
* * * *
60485988 TATGAATGATTTGTCTGTGATTTG
1 AATGACTGATTTTTCTGTGATTGG
60486012 AATGACTGATTTT
1 AATGACTGATTTT
60486025 GAGCATGGCA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.21, C:0.08, G:0.23, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTTTCTGTGATTGG
Found at i:60486189 original size:26 final size:26
Alignment explanation
Indices: 60486138--60486191 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
60486128 TTGGCTACAT
**
60486138 ATACTATTGCTGGCAGCTTTGTTGCG
1 ATACTATTGCTGGCAGCTTTACTGCG
*
60486164 ATACTGTTGCTGGCAGCTTTACTGCG
1 ATACTATTGCTGGCAGCTTTACTGCG
60486190 AT
1 AT
60486192 GCTACTGATG
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:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (26 bp):
ATACTATTGCTGGCAGCTTTACTGCG
Found at i:60486235 original size:32 final size:32
Alignment explanation
Indices: 60486194--60486693 Score: 295
Period size: 32 Copynumber: 15.7 Consensus size: 32
60486184 ACTGCGATGC
* *
60486194 TACTGATGGCTTTGTGCCGGTCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* *
60486226 TACTGATGGCTTTATGCCAATCATAGTACTGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* * * **
60486258 TACTGATGGTTTTGTACCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* *
60486290 TACCGATGG-TTGTGTGCCGATCAT-TTCACTGT
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACTGT
* * * * * *
60486322 TAATGATGACTGTGTACCAATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
* * *
60486354 TACTGATGGCTTTTTACCGATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACTGT
* *
60486386 TACTGATGG-TTGTGTGCCGGTCATA-TCACTGC
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACTGT
* * * *
60486418 TACTGATGGCTTTGTGCCAATCACATTATTG-
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
*
60486449 TACTTATGG--TTGTAGCC-ATTC-T-GTTTA-TAG-
1 TACTGATGGCTTTGT-GCCGA-TCATAG--TACT-GT
* *
60486479 TACTGATGGCTTTATGTCGATCATAGTACTGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* * * *
60486511 TACTGATGGCTTTGTGTCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGT
* * *
60486543 TACCGATGGCTATGTGCCGATCAT-TTCACTGT
1 TACTGATGGCTTTGTGCCGATCATAGT-ACTGT
*
60486575 TACTGATGGCTTTATGCCGATCAT-GTTA-TCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACT-GT
* * * *
60486607 TACTGATGGCTTTATGTCGTTCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACTGT
*
60486639 TACTGATGG-TTGTGTGCC-AGTCATA-TCACTGC
1 TACTGATGGCTT-TGTGCCGA-TCATAGT-ACTGT
* *
60486671 TACTAATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
60486694 CATTATTGTA
Statistics
Matches: 369, Mismatches: 66, Indels: 66
0.74 0.13 0.13
Matches are distributed among these distances:
29 6 0.02
30 16 0.04
31 28 0.08
32 309 0.84
33 10 0.03
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACTGT
Found at i:60486298 original size:64 final size:63
Alignment explanation
Indices: 60486194--60486693 Score: 338
Period size: 64 Copynumber: 7.9 Consensus size: 63
60486184 ACTGCGATGC
* * *
60486194 TACTGATGGCTTTGTGCCGGTCATAGTACCGTTACTGATGGCTTTATGCCAATCATAGTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTATGCCGATCAT-GTACTGT
* * * * * *
60486258 TACTGATGGTTTTGTACCGATCATATTACCATTACCGATGG-TTGTGTGCCGATCATTTCACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTT-TATGCCGATCATGT-ACTGT
* * * * * * * * * * *
60486322 TAATGATGACTGTGTACCAATCATATCACTGCTACTGATGGCTTTTTACCGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTATGCCGATCATG-TACTGT
* * * * * * *
60486386 TACTGATGG-TTGTGTGCCGGTCATATCACTGCTACTGATGGCTTTGTGCCAATCACAT-TATTG
1 TACTGATGGCTT-TGTGCCGATCATATTACCGTTACTGATGGCTTTATGCCGAT--CATGTACTG
60486449 -
63 T
* * ** *
60486449 TACTTATGG--TTGTAGCC-ATTC-TGTTTATAG-TACTGATGGCTTTATGTCGATCATAGTACT
1 TACTGATGGCTTTGT-GCCGA-TCAT-ATTACCGTTACTGATGGCTTTATGCCGATCAT-GTACT
60486509 GT
62 GT
* * * * * *
60486511 TACTGATGGCTTTGTGTCAATCATATTACCGTTACCGATGGCTATGTGCCGATCATTTCACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTATGCCGATCATGT-ACTGT
* * * * * *
60486575 TACTGATGGCTTTATGCCGATCATGTTATCGTTACTGATGGCTTTATGTCGTTCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTATGCCGATCATG-TACTGT
* * * * * *
60486639 TACTGATGG-TTGTGTGCC-AGTCATATCACTGCTACTAATGGCTTTGTGCCAATCA
1 TACTGATGGCTT-TGTGCCGA-TCATATTACCGTTACTGATGGCTTTATGCCGATCA
60486694 CATTATTGTA
Statistics
Matches: 337, Mismatches: 77, Indels: 44
0.74 0.17 0.10
Matches are distributed among these distances:
59 3 0.01
61 26 0.08
62 17 0.05
63 24 0.07
64 260 0.77
65 4 0.01
66 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (63 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGGCTTTATGCCGATCATGTACTGT
Found at i:60486597 original size:96 final size:96
Alignment explanation
Indices: 60486194--60486693 Score: 384
Period size: 96 Copynumber: 5.2 Consensus size: 96
60486184 ACTGCGATGC
* * * *
60486194 TACTGATGGCTTTGTGCCGGTCATAGTACCGTTACTGATGGCTTTATGCCAATCATAGTACTGTT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATGGCTTTGTGCCAATCATATTACTGTT
* * * **
60486259 ACTGATGGTTTTGTACCGATCATATTACCAT
66 ACTGATGGCTTTGTGCCGATCATGTTACTGT
* * * * * * *
60486290 TACCGATGG-TTGTGTGCCGATCAT-TTCACTGTTAATGATGACTGTGTACCAATCATATCACTG
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACTGTTACTGATGGCTTTGTGCCAATCATATTACTG
* * * *
60486353 CTACTGATGGCTTTTTACCGATCATGTTACCGT
64 TTACTGATGGCTTTGTGCCGATCATGTTACTGT
* * * *
60486386 TACTGATGG-TTGTGTGCCGGTCATA-TCACTGCTACTGATGGCTTTGTGCCAATCACATTATTG
1 TACTGATGGCTT-TGTGCCGATCATAGT-ACTGTTACTGATGGCTTTGTGCCAATCATATTACTG
*
60486449 -TACTTATGG--TTGTAGCC-ATTC-TGTTTA-TAG-
64 TTACTGATGGCTTTGT-GCCGA-TCATG-TTACT-GT
* * * *
60486479 TACTGATGGCTTTATGTCGATCATAGTACTGTTACTGATGGCTTTGTGTCAATCATATTACCGTT
1 TACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATGGCTTTGTGCCAATCATATTACTGTT
* *
60486544 ACCGATGGCTATGTGCCGATCAT-TTCACTGT
66 ACTGATGGCTTTGTGCCGATCATGTT-ACTGT
* * * ** * *
60486575 TACTGATGGCTTTATGCCGATCAT-GTTA-TCGTTACTGATGGCTTTATGTCGTTCATGTTACCG
1 TACTGATGGCTTTGTGCCGATCATAG-TACT-GTTACTGATGGCTTTGTGCCAATCATATTACTG
* * *
60486638 TTACTGATGG-TTGTGTGCC-AGTCATATCACTGC
64 TTACTGATGGCTT-TGTGCCGA-TCATGTTACTGT
* *
60486671 TACTAATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
60486694 CATTATTGTA
Statistics
Matches: 329, Mismatches: 53, Indels: 44
0.77 0.12 0.10
Matches are distributed among these distances:
93 56 0.17
94 20 0.06
95 22 0.07
96 230 0.70
97 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (96 bp):
TACTGATGGCTTTGTGCCGATCATAGTACTGTTACTGATGGCTTTGTGCCAATCATATTACTGTT
ACTGATGGCTTTGTGCCGATCATGTTACTGT
Found at i:60486674 original size:253 final size:254
Alignment explanation
Indices: 60486226--60486716 Score: 743
Period size: 253 Copynumber: 1.9 Consensus size: 254
60486216 ATAGTACCGT
* *
60486226 TACTGATGGCTTTATGCCAATCATAGTACTGTTACTGATGGTTTTGTACCGATCATATTACCATT
1 TACTGATGGCTTTATGCCAATCATAGTACTGTTACTGATGGCTTTGTACCAATCATATTACCATT
* * *
60486291 ACCGATGGTTGTGTGCCGATCATTTCACTGTTAATGATGACTGTGTACCAATCATATCACTGCTA
66 ACCGATGGCTATGTGCCGATCATTTCACTGTTAATGATGACTGTATACCAATCATATCACTGCTA
* *
60486356 CTGATGGCTTTTTACCGATCATGTTACCGTTACTGATGGTTGTGTGCCGGTCATATCACTGCTAC
131 CTGATGGCTTTATACCGATCATGTTACCGTTACTGATGGTTGTGTGCCAGTCATATCACTGCTAC
*
60486421 TGATGGCTTTGTGCCAATCACATTATTGTACTTATGG-TTGTAGCCATTCTGTTTATAG
196 TAATGGCTTTGTGCCAATCACATTATTGTACTTATGGCTTGTAGCCATTCTGTTTATAG
* * ** *
60486479 TACTGATGGCTTTATGTCGATCATAGTACTGTTACTGATGGCTTTGTGTCAATCATATTACCGTT
1 TACTGATGGCTTTATGCCAATCATAGTACTGTTACTGATGGCTTTGTACCAATCATATTACCATT
* * * * * * * *
60486544 ACCGATGGCTATGTGCCGATCATTTCACTGTTACTGATGGCTTTATGCCGATCATGTTA-TCGTT
66 ACCGATGGCTATGTGCCGATCATTTCACTGTTAATGATGACTGTATACCAATCATATCACT-GCT
** *
60486608 ACTGATGGCTTTATGTCGTTCATGTTACCGTTACTGATGGTTGTGTGCCAGTCATATCACTGCTA
130 ACTGATGGCTTTATACCGATCATGTTACCGTTACTGATGGTTGTGTGCCAGTCATATCACTGCTA
60486673 CTAATGGCTTTGTGCCAATCACATTATTGTACTTATGGCTTGTA
195 CTAATGGCTTTGTGCCAATCACATTATTGTACTTATGGCTTGTA
60486717 ACCTGTTTAT
Statistics
Matches: 212, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
252 1 0.00
253 206 0.97
254 5 0.02
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (254 bp):
TACTGATGGCTTTATGCCAATCATAGTACTGTTACTGATGGCTTTGTACCAATCATATTACCATT
ACCGATGGCTATGTGCCGATCATTTCACTGTTAATGATGACTGTATACCAATCATATCACTGCTA
CTGATGGCTTTATACCGATCATGTTACCGTTACTGATGGTTGTGTGCCAGTCATATCACTGCTAC
TAATGGCTTTGTGCCAATCACATTATTGTACTTATGGCTTGTAGCCATTCTGTTTATAG
Found at i:60486817 original size:26 final size:26
Alignment explanation
Indices: 60486759--60486811 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
60486749 GGCTCTTAGC
* * *
60486759 CATTCTTACTACTGGCACCTTTGCTA
1 CATTATTACTACTGCCACCTATGCTA
*
60486785 CATTATTACTACTGCCAGCTATGCTA
1 CATTATTACTACTGCCACCTATGCTA
60486811 C
1 C
60486812 GATATTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (26 bp):
CATTATTACTACTGCCACCTATGCTA
Found at i:60486882 original size:37 final size:37
Alignment explanation
Indices: 60486841--60486914 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
60486831 GGTGGGTTGA
60486841 CTCTTTCACCACATGGTGTGTTGGGTTGGTACGGGTG
1 CTCTTTCACCACATGGTGTGTTGGGTTGGTACGGGTG
*
60486878 CTCTTTCCCCACATGGTGTGTTGGGTTGGTACGGGTG
1 CTCTTTCACCACATGGTGTGTTGGGTTGGTACGGGTG
60486915 GTGTGTTGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.09, C:0.20, G:0.35, T:0.35
Consensus pattern (37 bp):
CTCTTTCACCACATGGTGTGTTGGGTTGGTACGGGTG
Found at i:60499226 original size:27 final size:27
Alignment explanation
Indices: 60499196--60499409 Score: 241
Period size: 27 Copynumber: 7.9 Consensus size: 27
60499186 ACAGTCGTTT
* *
60499196 TACCCTATGAGGGTATTTCGGTGATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* *
60499223 TACCCTATGGGGGTATTTTGATCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* * * *
60499250 TACCCTATAGGGATATTTCAGTTATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
* *
60499277 TACCCTATGTGGGTATTTCGGTCATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
* * * *
60499304 TACCCAATGGGGGGTTTTTGGGTCATTT
1 TACCCTAT-GGGGGTATTTCGGTCATTC
* *
60499332 TACCCTATGGGGGTATTTTGGTCATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
** *
60499359 TACCCTAT-AAGGTATTTCAGTCATTC
1 TACCCTATGGGGGTATTTCGGTCATTC
60499385 TACCCTATGGGGGTATTTCGGTCAT
1 TACCCTATGGGGGTATTTCGGTCAT
60499410 AATAGTGTAA
Statistics
Matches: 154, Mismatches: 31, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
26 21 0.14
27 110 0.71
28 23 0.15
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (27 bp):
TACCCTATGGGGGTATTTCGGTCATTC
Found at i:60499267 original size:54 final size:54
Alignment explanation
Indices: 60499193--60499409 Score: 267
Period size: 54 Copynumber: 4.0 Consensus size: 54
60499183 ATAACAGTCG
* * *
60499193 TTTTACCCTATGAGGGTATTTCGGTGATTCTACCCTATGGGGGTATTTTGATCA
1 TTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTTGGTCA
* * * *
60499247 TTCTACCCTAT-AGGGATATTTCAGTTATTCTACCCTATGTGGGTATTTCGGTCA
1 TTTTACCCTATGAGGG-TATTTCAGTCATTCTACCCTATGGGGGTATTTTGGTCA
* * * ** *
60499301 TTTTACCCAATGGGGGGTTTTTGGGTCATTTTACCCTATGGGGGTATTTTGGTCA
1 TTTTACCCTAT-GAGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTTGGTCA
* *
60499356 TTTTACCCTAT-AAGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCGGTCA
1 TTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTTGGTCA
60499409 T
1 T
60499410 AATAGTGTAA
Statistics
Matches: 136, Mismatches: 24, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
53 40 0.29
54 52 0.38
55 41 0.30
56 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (54 bp):
TTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTTGGTCA
Found at i:60500063 original size:12 final size:13
Alignment explanation
Indices: 60500016--60500065 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
60500006 CCCCAAATCC
60500016 CAATATTCTCTCCT
1 CAATA-TCTCTCCT
*
60500030 CAGATCTCTCTCC-
1 CA-ATATCTCTCCT
*
60500043 AAATATCTCTCCT
1 CAATATCTCTCCT
60500056 CAAT-TCTCTC
1 CAATATCTCTC
60500066 TATGACCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 15 0.50
13 4 0.13
14 9 0.30
15 2 0.07
ACGTcount: A:0.22, C:0.38, G:0.02, T:0.38
Consensus pattern (13 bp):
CAATATCTCTCCT
Found at i:60502359 original size:50 final size:51
Alignment explanation
Indices: 60502292--60502484 Score: 228
Period size: 50 Copynumber: 3.7 Consensus size: 51
60502282 TTTCTTGTAC
* * **
60502292 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATAT-AGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGG
* * * *
60502342 TGCCCATGCCATGTCCCAGACGTGGTCTTACAGGGGACCTCTCATCTCA-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGG
* * *
60502392 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC-A-GG
60502448 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
60502485 TCTCCTCCTC
Statistics
Matches: 119, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
50 80 0.67
51 1 0.01
53 2 0.02
54 1 0.01
56 35 0.29
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGG
Found at i:60503794 original size:34 final size:34
Alignment explanation
Indices: 60503756--60503869 Score: 97
Period size: 34 Copynumber: 3.4 Consensus size: 34
60503746 GCGATATGAC
*
60503756 ATGCTTATAACAGATTAATACGGTAGCACTTAAT
1 ATGCTTATAACAGATTAATACGGTAGCAATTAAT
* * ** * *
60503790 ATGCTCATAACA-ATTCGATGTGGTAACAAATAAT
1 ATGCTTATAACAGATT-AATACGGTAGCAATTAAT
* * * *
60503824 ATGGTTATAACGGATCAATACGAT-GACAATTAAT
1 ATGCTTATAACAGATTAATACGGTAG-CAATTAAT
60503858 ATGCTTATAACA
1 ATGCTTATAACA
60503870 AATCAGAGCA
Statistics
Matches: 58, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
33 3 0.05
34 53 0.91
35 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (34 bp):
ATGCTTATAACAGATTAATACGGTAGCAATTAAT
Found at i:60511898 original size:37 final size:37
Alignment explanation
Indices: 60511842--60511920 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
60511832 CCGAGCTCTA
* * *
60511842 AAGACCTGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
60511879 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60511916 AAGAC
1 AAGAC
60511921 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60514389 original size:18 final size:19
Alignment explanation
Indices: 60514358--60514394 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
60514348 AAATTAAAAT
60514358 ATTAATTAAACT-AATTAA
1 ATTAATTAAACTAAATTAA
60514376 ATTAA-TAAACCTAAATTAA
1 ATTAATTAAA-CTAAATTAA
60514395 CCTAATGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAATTAAACTAAATTAA
Found at i:60519899 original size:12 final size:12
Alignment explanation
Indices: 60519884--60519908 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60519874 GGTATTTTTC
60519884 AAGGAATGGGAA
1 AAGGAATGGGAA
60519896 AAGGAATGGGAA
1 AAGGAATGGGAA
60519908 A
1 A
60519909 GATGACTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.40, T:0.08
Consensus pattern (12 bp):
AAGGAATGGGAA
Found at i:60532069 original size:40 final size:39
Alignment explanation
Indices: 60532025--60532102 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
60532015 AGTGACCATA
* *
60532025 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGACATTTGTGCGAGATACTAAT
* *
60532065 TCCGGGCTAAGCCCGAAGACATTTGTGCGAGTTACTAA
1 TCCGGACTAAGCCCGAAGACATTTGTGCGAGATACTAA
60532103 ATCTGGGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 24 0.71
40 10 0.29
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGACATTTGTGCGAGATACTAAT
Found at i:60532131 original size:40 final size:40
Alignment explanation
Indices: 60531985--60532169 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
60531975 TTGAATGATG
* * * *
60531985 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
60532025 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60532065 TCCGGGCTAAG-CCCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
60532104 TCTGGGTTAAGTCCCGAAGGCAATTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60532145 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60532170 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60532191 original size:79 final size:79
Alignment explanation
Indices: 60532038--60532202 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
60532028 GGACTAAGAT
* * **
60532038 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGACATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGACATTTGAACGAGTTACTAA
* *
60532103 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* * * *
60532117 CCGAAGGCAATTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGACATTTGAACGAGTTA-C
* *
60532180 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
60532196 CCGAAGG
1 CCGAAGG
60532203 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGACATTTGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:60534127 original size:12 final size:12
Alignment explanation
Indices: 60534109--60534141 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
60534099 TTGGGACAAA
60534109 TGACCGTGTC-C
1 TGACCGTGTCTC
60534120 TAGACCGTGTCTC
1 T-GACCGTGTCTC
60534133 TGACCGTGT
1 TGACCGTGT
60534142 AACTCACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 17 0.85
13 2 0.10
ACGTcount: A:0.12, C:0.30, G:0.27, T:0.30
Consensus pattern (12 bp):
TGACCGTGTCTC
Found at i:60538422 original size:25 final size:24
Alignment explanation
Indices: 60538367--60538422 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
60538357 TTTAAAGTCC
* **
60538367 TAATTCATAGCTCGTGTGAGCTAT
1 TAATTCATAGCTCGTGTAAGAAAT
*
60538391 TATATTCATAGCTTGTGTAAGAAATT
1 TA-ATTCATAGCTCGTGTAAGAAA-T
60538417 TAATTC
1 TAATTC
60538423 TCGTGTATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 21 0.81
26 3 0.12
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (24 bp):
TAATTCATAGCTCGTGTAAGAAAT
Found at i:60548814 original size:160 final size:165
Alignment explanation
Indices: 60548624--60548960 Score: 432
Period size: 173 Copynumber: 2.0 Consensus size: 165
60548614 TCAAAATAGG
* * *
60548624 GACACACGACCTTGTCCCAGCCCGTGTAACTCACTAACTTGGGTCACACGGTC-G-T-A-TGT-C
1 GACACACGACCATGTCCCAGCCCGTGTAACTCACTAACTTAGGTCACACGGCCAGCTCAGTGTCC
* * *
60548684 AGGCCTTGTGCTAGGTCGTGTAACAGCCTAACTTGTAACCCTTTGAAAGCTACAGAGGACACACG
66 AGGCCTTGTCCTAGGTCATGTAACAGCCTAACTTGCAACCCTTTGAAAGCTACAGAGGACACACG
*
60548749 GCCATGTCACCTGGCCGTGTCTCACACAAAGCTGA
131 GCCATGTCACCTGGCCGTGTATCACACAAAGCTGA
* * * *
60548784 GACACACGGCCATGTCCCAGCCCGTGTAACTCATTGACTTAGGTCACATGGCCAAGCCACATGCC
1 GACACACGACCATGTCCCAGCCCGTGTAACTCACTAACTTAGGTCACACGGCC-AG---C-T--C
* * *
60548849 AGTGTGCCAGGCCTTGTCCTAGGTCATTTAACAGCCTGACTTGCAACCCTTTGAAAGCTATAGAG
59 AGTGT-CCAGGCCTTGTCCTAGGTCATGTAACAGCCTAACTTGCAACCCTTTGAAAGCTACAGAG
*
60548914 GACACACGGCCATGTCACCTGGCTGTGTATCACACAAAGCTGA
123 GACACACGGCCATGTCACCTGGCCGTGTATCACACAAAGCTGA
60548957 GACA
1 GACA
60548961 TACACCCGTG
Statistics
Matches: 149, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
160 46 0.31
162 1 0.01
167 1 0.01
170 1 0.01
171 3 0.02
173 97 0.65
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (165 bp):
GACACACGACCATGTCCCAGCCCGTGTAACTCACTAACTTAGGTCACACGGCCAGCTCAGTGTCC
AGGCCTTGTCCTAGGTCATGTAACAGCCTAACTTGCAACCCTTTGAAAGCTACAGAGGACACACG
GCCATGTCACCTGGCCGTGTATCACACAAAGCTGA
Found at i:60550105 original size:25 final size:23
Alignment explanation
Indices: 60550065--60550183 Score: 114
Period size: 25 Copynumber: 4.7 Consensus size: 23
60550055 TCATGTACAT
60550065 GTATGCTCATACGAGCTGT-GAATCG
1 GTATGCTC--ACGAGCTGTAG-ATCG
60550090 GTATGCTCACTTGAGCTGTAGATCG
1 GTATGCTCAC--GAGCTGTAGATCG
* *
60550115 GTATGCTTTCACGAGCTATAAATCG
1 GTATGC--TCACGAGCTGTAGATCG
60550140 GTATGCTCACACGAGCTGTAGATCG
1 GTATGCT--CACGAGCTGTAGATCG
60550165 GTATGCTCTCACGAGCTGT
1 GTATG--CTCACGAGCTGT
60550184 GAGTGGGAAT
Statistics
Matches: 81, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
23 3 0.04
25 71 0.88
26 1 0.01
27 6 0.07
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (23 bp):
GTATGCTCACGAGCTGTAGATCG
Found at i:60550140 original size:50 final size:50
Alignment explanation
Indices: 60550065--60550181 Score: 173
Period size: 50 Copynumber: 2.3 Consensus size: 50
60550055 TCATGTACAT
* * **
60550065 GTATGCTCAT-ACGAGCTGTGAATCGGTATGCTCACTTGAGCTGTAGATCG
1 GTATGCTC-TCACGAGCTATAAATCGGTATGCTCACACGAGCTGTAGATCG
*
60550115 GTATGCTTTCACGAGCTATAAATCGGTATGCTCACACGAGCTGTAGATCG
1 GTATGCTCTCACGAGCTATAAATCGGTATGCTCACACGAGCTGTAGATCG
60550165 GTATGCTCTCACGAGCT
1 GTATGCTCTCACGAGCT
60550182 GTGAGTGGGA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 1 0.02
50 59 0.98
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (50 bp):
GTATGCTCTCACGAGCTATAAATCGGTATGCTCACACGAGCTGTAGATCG
Found at i:60573734 original size:41 final size:40
Alignment explanation
Indices: 60573622--60573738 Score: 144
Period size: 42 Copynumber: 2.8 Consensus size: 40
60573612 AAGTAAAGCA
**
60573622 ATAGCGGCATTTTCTCATAAACACCGCAAAAGGTTAGAACT
1 ATAGCGGCATTTTCTCATAAAC-GTGCAAAAGGTTAGAACT
**
60573663 ATAGCATCATTTTTCTCATAAACGCTGCAAAAGGTTAGAACT
1 ATAGCGGCA-TTTTCTCATAAACG-TGCAAAAGGTTAGAACT
* *
60573705 ATAGCGGCGTTTTCTCACAAACGTGGCAAAAGGT
1 ATAGCGGCATTTTCTCATAAACGT-GCAAAAGGT
60573739 AAGCAAAAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.02
41 29 0.45
42 35 0.54
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (40 bp):
ATAGCGGCATTTTCTCATAAACGTGCAAAAGGTTAGAACT
Found at i:60577338 original size:35 final size:35
Alignment explanation
Indices: 60577293--60577359 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
60577283 ATATTTAAAG
60577293 ATGATAATCATAACTTACACAAACATTTAAAGTTT
1 ATGATAATCATAACTTACACAAACATTTAAAGTTT
* *
60577328 ATGATTATCATAACTTACATAAACATTTAAAG
1 ATGATAATCATAACTTACACAAACATTTAAAG
60577360 AATAGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.34
Consensus pattern (35 bp):
ATGATAATCATAACTTACACAAACATTTAAAGTTT
Found at i:60583397 original size:42 final size:43
Alignment explanation
Indices: 60583350--60583500 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
60583340 TCCCACAAAC
* *
60583350 GCTGCTAAAGAACATGACCTTTAGCGGC-CTTTTACTAAAAAA
1 GCTGCTAAAGAACATGACCTTTAGCAGCACTTTTACTAAAAAT
* * * * * *
60583392 GCTGCTATAGAACATGACTTTTAACCGCACTTTTCCCAAAAAT
1 GCTGCTAAAGAACATGACCTTTAGCAGCACTTTTACTAAAAAT
* * * *
60583435 GCCGCTAAAGAACATGACCTTTAGCAACGCTTTTACTAAAATT
1 GCTGCTAAAGAACATGACCTTTAGCAGCACTTTTACTAAAAAT
60583478 G-TCGCTATAA-AACATGACCTTTA
1 GCT-GCTA-AAGAACATGACCTTTA
60583501 CTAGTTTTTT
Statistics
Matches: 88, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 24 0.27
43 62 0.70
44 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (43 bp):
GCTGCTAAAGAACATGACCTTTAGCAGCACTTTTACTAAAAAT
Found at i:60583447 original size:43 final size:42
Alignment explanation
Indices: 60583337--60583457 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 42
60583327 GTGAGTGGCT
* * * *
60583337 TTTTCCCACAAACGCTGCTAAAGAACATGACCTTTAGCGGCC
1 TTTTCCCAAAAAAGCTGCTAAAGAACATGACCTTTAACCGCC
* * * *
60583379 TTTTACTAAAAAAGCTGCTATAGAACATGACTTTTAACCGCAC
1 TTTTCCCAAAAAAGCTGCTAAAGAACATGACCTTTAACCGC-C
* *
60583422 TTTTCCCAAAAATGCCGCTAAAGAACATGACCTTTA
1 TTTTCCCAAAAAAGCTGCTAAAGAACATGACCTTTA
60583458 GCAACGCTTT
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 33 0.52
43 31 0.48
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (42 bp):
TTTTCCCAAAAAAGCTGCTAAAGAACATGACCTTTAACCGCC
Found at i:60587711 original size:49 final size:49
Alignment explanation
Indices: 60587649--60588176 Score: 965
Period size: 49 Copynumber: 10.9 Consensus size: 49
60587639 TAGTATGGCG
60587649 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
60587698 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
60587747 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
60587796 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
60587845 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
60587894 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
60587943 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
60587992 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
*
60588041 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
*
60588090 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
* * * * *
60588137 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
60588177 AGTCCCGAAG
Statistics
Matches: 469, Mismatches: 8, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
47 46 0.10
48 1 0.00
49 422 0.90
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
Found at i:60588352 original size:37 final size:37
Alignment explanation
Indices: 60588296--60588374 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60588286 CCGAGCTCTA
* * *
60588296 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
60588333 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60588370 AAGAC
1 AAGAC
60588375 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60595887 original size:67 final size:68
Alignment explanation
Indices: 60595809--60595941 Score: 241
Period size: 68 Copynumber: 2.0 Consensus size: 68
60595799 GCATGGCCCT
* *
60595809 CTTTATAGCTT-AAAATATAATATGCTTAAATTAATATAAAATAAGTCATTTTATGCATGAAAAC
1 CTTTATAGCTTAAAAATATAATATGCTCAAATTAATATAAAATAAGCCATTTTATGCATGAAAAC
60595873 TTA
66 TTA
60595876 CTTTATAGCTTAAAAATATAATATGCTCAAATTAATATAAAATAAGCCATTTTATGCATGAAAAC
1 CTTTATAGCTTAAAAATATAATATGCTCAAATTAATATAAAATAAGCCATTTTATGCATGAAAAC
60595941 T
66 T
60595942 ATATAATAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
67 11 0.17
68 52 0.83
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (68 bp):
CTTTATAGCTTAAAAATATAATATGCTCAAATTAATATAAAATAAGCCATTTTATGCATGAAAAC
TTA
Found at i:60608483 original size:11 final size:11
Alignment explanation
Indices: 60608469--60608516 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
60608459 ATTAATCATT
60608469 TAATAATAAAA
1 TAATAATAAAA
*
60608480 TAATACTAAAA
1 TAATAATAAAA
*
60608491 GTATTAATAAAA
1 -TAATAATAAAA
* *
60608503 TATTAATTAAA
1 TAATAATAAAA
60608514 TAA
1 TAA
60608517 CATTTATCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:60616969 original size:24 final size:24
Alignment explanation
Indices: 60616942--60616988 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
60616932 AGCATCATTC
60616942 AAACATGCATAAATATGCCATTTA
1 AAACATGCATAAATATGCCATTTA
*
60616966 AAACATGCATAAATATGTCATTT
1 AAACATGCATAAATATGCCATTT
60616989 CAACAGCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.32
Consensus pattern (24 bp):
AAACATGCATAAATATGCCATTTA
Found at i:60618084 original size:20 final size:20
Alignment explanation
Indices: 60618042--60618104 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
60618032 GGACAGAAAT
* *
60618042 GTGCAAACAGGGGCACTGTA
1 GTGCAAACAGGGGCACCGAA
*
60618062 GTGCAAACAGGGACACCGAA
1 GTGCAAACAGGGGCACCGAA
* * *
60618082 GTGTATATAGGGGCACCGAA
1 GTGCAAACAGGGGCACCGAA
60618102 GTG
1 GTG
60618105 TAAATCTCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.35, T:0.14
Consensus pattern (20 bp):
GTGCAAACAGGGGCACCGAA
Found at i:60629472 original size:11 final size:11
Alignment explanation
Indices: 60629456--60629497 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
60629446 AGCAATTATC
60629456 CAACATTTAGA
1 CAACATTTAGA
60629467 CAACATTTA-A
1 CAACATTTAGA
* *
60629477 TTAACATTTGGA
1 -CAACATTTAGA
60629489 CAACATTTA
1 CAACATTTA
60629498 ATCAACAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 23 0.92
12 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (11 bp):
CAACATTTAGA
Found at i:60629485 original size:22 final size:22
Alignment explanation
Indices: 60629456--60629636 Score: 202
Period size: 22 Copynumber: 8.2 Consensus size: 22
60629446 AGCAATTATC
*
60629456 CAACATTTAGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
*
60629478 TAACATTTGGACAACATTTAAT
1 CAACATTTGGACAACATTTAAT
* * * * *
60629500 CAACAATTGAACAGCCTTCAAT
1 CAACATTTGGACAACATTTAAT
*
60629522 CAACATTTGGACATCATTTAAT
1 CAACATTTGGACAACATTTAAT
* *
60629544 CAACAATTGGACAACATTAAAT
1 CAACATTTGGACAACATTTAAT
60629566 CAACATTTGGACAGA-ATTTAAT
1 CAACATTTGGACA-ACATTTAAT
* * * *
60629588 GAACAATTGGACAGCATTCAAT
1 CAACATTTGGACAACATTTAAT
* *
60629610 CAATATTTGGACAGCATTTAAT
1 CAACATTTGGACAACATTTAAT
60629632 CAACA
1 CAACA
60629637 ATTTTTACTT
Statistics
Matches: 130, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
22 129 0.99
23 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.29
Consensus pattern (22 bp):
CAACATTTGGACAACATTTAAT
Found at i:60629528 original size:66 final size:66
Alignment explanation
Indices: 60629456--60629639 Score: 224
Period size: 66 Copynumber: 2.8 Consensus size: 66
60629446 AGCAATTATC
* * **
60629456 CAACATTTAGACAACATTTAATTAACATTTGGACAACATTTAATCAACAATTGAACAGCCTTCAA
1 CAACATTTGGACAACATTTAATCAACATTTGGACAACATTTAATCAACAATTGAACAGAATTCAA
60629521 T
66 T
* * * * * *
60629522 CAACATTTGGACATCATTTAATCAACAATTGGACAACATTAAATCAACATTTGGACAGAATTTAA
1 CAACATTTGGACAACATTTAATCAACATTTGGACAACATTTAATCAACAATTGAACAGAATTCAA
60629587 T
66 T
* * * * * *
60629588 GAACAATTGGACAGCATTCAATCAATATTTGGACAGCATTTAATCAACAATT
1 CAACATTTGGACAACATTTAATCAACATTTGGACAACATTTAATCAACAATT
60629640 TTTACTTCAA
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 99 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (66 bp):
CAACATTTGGACAACATTTAATCAACATTTGGACAACATTTAATCAACAATTGAACAGAATTCAA
T
Found at i:60636601 original size:22 final size:22
Alignment explanation
Indices: 60636589--60636964 Score: 457
Period size: 22 Copynumber: 17.1 Consensus size: 22
60636579 ATATAATTAT
60636589 CATTTGGACAGCATTTAATCAA
1 CATTTGGACAGCATTTAATCAA
* *
60636611 CAATTGGACAGCATTCAATTC-A
1 CATTTGGACAGCATTTAA-TCAA
60636633 CATTTGGACAGCATTTAATCAA
1 CATTTGGACAGCATTTAATCAA
* * *
60636655 CAATTGGACAACATTAAATCAA
1 CATTTGGACAGCATTTAATCAA
* *
60636677 TATTTGGACAGCATTTAGTCAA
1 CATTTGGACAGCATTTAATCAA
* *
60636699 CAATTGGACAGCATTAAATCAA
1 CATTTGGACAGCATTTAATCAA
60636721 CATTTGGACAGCATTTAATCAA
1 CATTTGGACAGCATTTAATCAA
* * *
60636743 CAATTGGACAACATTAAATCAA
1 CATTTGGACAGCATTTAATCAA
* *
60636765 TATTTGGACAGCATTTAGTCAA
1 CATTTGGACAGCATTTAATCAA
* *
60636787 CAATTGGACAGCATTAAATCAA
1 CATTTGGACAGCATTTAATCAA
60636809 CATTTGGACAGCATTTAATCAA
1 CATTTGGACAGCATTTAATCAA
* * * *
60636831 CAATTAGACAACATTCAATCAA
1 CATTTGGACAGCATTTAATCAA
* *
60636853 TATTTGGACATCATTTAATCAA
1 CATTTGGACAGCATTTAATCAA
* * * *
60636875 CAATTGGACAACATTAAATTAA
1 CATTTGGACAGCATTTAATCAA
* *
60636897 CATTTGGACAGAATTTAATGAA
1 CATTTGGACAGCATTTAATCAA
* *
60636919 CAATTGGACAGCATTCAATCAA
1 CATTTGGACAGCATTTAATCAA
*
60636941 TATTTGGACAGCATTTAATCAA
1 CATTTGGACAGCATTTAATCAA
60636963 CA
1 CA
60636965 ATTTTGACTT
Statistics
Matches: 293, Mismatches: 59, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
21 2 0.01
22 289 0.99
23 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (22 bp):
CATTTGGACAGCATTTAATCAA
Found at i:60636637 original size:44 final size:44
Alignment explanation
Indices: 60636589--60636967 Score: 580
Period size: 44 Copynumber: 8.6 Consensus size: 44
60636579 ATATAATTAT
* *
60636589 CATTTGGACAGCATTTAATCAACAATTGGACAGCATTCAATTC-A
1 CATTTGGACAGCATTTAATCAACAATTGGACAACATT-AAATCAA
60636633 CATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAA
1 CATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAA
* * *
60636677 TATTTGGACAGCATTTAGTCAACAATTGGACAGCATTAAATCAA
1 CATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAA
60636721 CATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAA
1 CATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAA
* * *
60636765 TATTTGGACAGCATTTAGTCAACAATTGGACAGCATTAAATCAA
1 CATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAA
* *
60636809 CATTTGGACAGCATTTAATCAACAATTAGACAACATTCAATCAA
1 CATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAA
* * *
60636853 TATTTGGACATCATTTAATCAACAATTGGACAACATTAAATTAA
1 CATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAA
* * * *
60636897 CATTTGGACAGAATTTAATGAACAATTGGACAGCATTCAATCAA
1 CATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAA
*
60636941 TATTTGGACAGCATTTAATCAACAATT
1 CATTTGGACAGCATTTAATCAACAATT
60636968 TTGACTTCAA
Statistics
Matches: 303, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 4 0.01
44 299 0.99
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (44 bp):
CATTTGGACAGCATTTAATCAACAATTGGACAACATTAAATCAA
Found at i:60648598 original size:33 final size:33
Alignment explanation
Indices: 60648533--60648604 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 33
60648523 ATATTTTAAA
* *
60648533 ATAATTATAATATTTAATTTAAAAATATTAATT
1 ATAATTGTGATATTTAATTTAAAAATATTAATT
60648566 A-AATTGTGATATTTATATATTAAAAA-ATTAATT
1 ATAATTGTGATATTTA-AT-TTAAAAATATTAATT
60648599 ATAATT
1 ATAATT
60648605 TAATAGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 12 0.35
33 11 0.32
34 11 0.32
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (33 bp):
ATAATTGTGATATTTAATTTAAAAATATTAATT
Found at i:60649524 original size:18 final size:17
Alignment explanation
Indices: 60649501--60649535 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
60649491 GAATGGCAGG
*
60649501 TATTTTACTTTTTTATTT
1 TATTTTA-TTTCTTATTT
60649519 TATTTTATTTCTTATTT
1 TATTTTATTTCTTATTT
60649536 CCCATTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTATTTCTTATTT
Found at i:60650033 original size:10 final size:11
Alignment explanation
Indices: 60650010--60650035 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60650000 TTATTTTTAG
60650010 TTTTGAAACTT
1 TTTTGAAACTT
60650021 TTTTGAAACTT
1 TTTTGAAACTT
60650032 TTTT
1 TTTT
60650036 ATTATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (11 bp):
TTTTGAAACTT
Found at i:60655461 original size:25 final size:25
Alignment explanation
Indices: 60655428--60655477 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
60655418 TTATAAATCA
*
60655428 GAAAAATATCTTTAGA-AATTTTCT
1 GAAAAATATCTTCAGAGAATTTTCT
60655452 GAAATAATATCTTCAGAGAATTTTCT
1 GAAA-AATATCTTCAGAGAATTTTCT
60655478 CTCGACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (25 bp):
GAAAAATATCTTCAGAGAATTTTCT
Found at i:60661594 original size:11 final size:11
Alignment explanation
Indices: 60661578--60661608 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
60661568 TTTACAGAGC
60661578 TTTATTAAGGT
1 TTTATTAAGGT
*
60661589 TTTATTAAAGT
1 TTTATTAAGGT
60661600 TTTATTAAG
1 TTTATTAAG
60661609 AAATTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (11 bp):
TTTATTAAGGT
Found at i:60665234 original size:39 final size:39
Alignment explanation
Indices: 60665163--60665418 Score: 345
Period size: 39 Copynumber: 6.5 Consensus size: 39
60665153 ATATAATCAA
* *
60665163 GGGCACGTAAGTGCAAATCAGGGGTA-TAGAAGTACAACAG
1 GGGCACGTATGTGC-ATTCAGGGGTACT-GAAGTACAACAG
*
60665203 GAGCACGTATGTGCATTCAGGGGTACTGAAGTACAACAG
1 GGGCACGTATGTGCATTCAGGGGTACTGAAGTACAACAG
*
60665242 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAG
1 GGGCACGTATGTGCATTCAGGGGTACTGAAGTACAACAG
* * *
60665281 AGGCACGTATGTGCATTCAAGGGTGCTGAAGTACAACAG
1 GGGCACGTATGTGCATTCAGGGGTACTGAAGTACAACAG
* *
60665320 GGGCATGTATGTGCATTTAGGGGTA-TCGAAGTACAACAG
1 GGGCACGTATGTGCATTCAGGGGTACT-GAAGTACAACAG
* * * *
60665359 GGGCACGTATGTGCATTCAAGGGTACCGAAGTACAAAAA
1 GGGCACGTATGTGCATTCAGGGGTACTGAAGTACAACAG
*
60665398 GGGCACGTATGTGCAGTCAGG
1 GGGCACGTATGTGCATTCAGG
60665419 TATAAATACA
Statistics
Matches: 191, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 177 0.93
40 13 0.07
ACGTcount: A:0.31, C:0.17, G:0.32, T:0.20
Consensus pattern (39 bp):
GGGCACGTATGTGCATTCAGGGGTACTGAAGTACAACAG
Found at i:60665244 original size:19 final size:18
Alignment explanation
Indices: 60665220--60665280 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
60665210 TATGTGCATT
60665220 CAGGGGTACTGAAGTACAA
1 CAGGGGTAC-GAAGTACAA
* * * *
60665239 CAGGGGCACGTATGTGCATT
1 CAGGGGTACG-AAGTACA-A
60665259 CAGGGGTACCGAAGTACAA
1 CAGGGGTA-CGAAGTACAA
60665278 CAG
1 CAG
60665281 AGGCACGTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
18 1 0.03
19 16 0.52
20 12 0.39
21 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.33, T:0.16
Consensus pattern (18 bp):
CAGGGGTACGAAGTACAA
Found at i:60671492 original size:20 final size:19
Alignment explanation
Indices: 60671445--60671484 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
60671435 AATAAATTAA
60671445 AATGAGCTCAAACGAGCTG
1 AATGAGCTCAAACGAGCTG
*
60671464 AAAGAAGCTCAAACGAGCTG
1 AATG-AGCTCAAACGAGCTG
60671484 A
1 A
60671485 TTTGAGCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
AATGAGCTCAAACGAGCTG
Found at i:60674124 original size:69 final size:68
Alignment explanation
Indices: 60674001--60674131 Score: 183
Period size: 69 Copynumber: 1.9 Consensus size: 68
60673991 TCTTTTACAT
* * * ** *
60674001 TCTCGCTCTCTTTTTCAGTTTGCTTTTCTTGCTCACATTCTTTTTCTTTTTCAATCTCGTTTTGT
1 TCTCACTCTCGTTTTCACTTTGCTTTTCTTGCTCACATTCTTTTTCGCTCTCAATCTC-TTTTGT
60674066 TTTC
65 TTTC
60674070 TCTCACTCTCGTTTTCAACTTT-CTTTTCTTGCTCACATTCTTTTTCGCTCTCAATCTCTTTT
1 TCTCACTCTCGTTTTC-ACTTTGCTTTTCTTGCTCACATTCTTTTTCGCTCTCAATCTCTTTT
60674132 CGCTCTCTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
68 4 0.07
69 47 0.85
70 4 0.07
ACGTcount: A:0.09, C:0.27, G:0.07, T:0.56
Consensus pattern (68 bp):
TCTCACTCTCGTTTTCACTTTGCTTTTCTTGCTCACATTCTTTTTCGCTCTCAATCTCTTTTGTT
TTC
Found at i:60674154 original size:69 final size:69
Alignment explanation
Indices: 60674001--60674154 Score: 179
Period size: 69 Copynumber: 2.2 Consensus size: 69
60673991 TCTTTTACAT
* * ** * *
60674001 TCTCGCTCTCTTTTTCAGTTTGCTTTTCTTGCTCACATTCTTTTTCTTTTTCAATCTCGTTTTGT
1 TCTCACTCTCTTTTTCACTTTGCTTTTCTTGCTCACATTCTTTTTCGCTCTCAATCTCGTTTTGC
*
60674066 TTTC
66 TCTC
*
60674070 TCTCACTCTCGTTTTCAACTTT-CTTTTCTTGCTCACATTCTTTTTCGCTCTCAATCTC-TTTTC
1 TCTCACTCTCTTTTTC-ACTTTGCTTTTCTTGCTCACATTCTTTTTCGCTCTCAATCTCGTTTT-
60674133 GCTCTC
64 GCTCTC
*
60674139 T-TCCATTCTCTTTTTC
1 TCT-CACTCTCTTTTTC
60674155 TTTTTCAATT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
68 5 0.07
69 63 0.88
70 4 0.06
ACGTcount: A:0.08, C:0.29, G:0.06, T:0.56
Consensus pattern (69 bp):
TCTCACTCTCTTTTTCACTTTGCTTTTCTTGCTCACATTCTTTTTCGCTCTCAATCTCGTTTTGC
TCTC
Found at i:60684161 original size:43 final size:43
Alignment explanation
Indices: 60684100--60684253 Score: 148
Period size: 43 Copynumber: 3.6 Consensus size: 43
60684090 GGTAAAATAA
* * *
60684100 CCAACACTAGTACATAGTATCTGCTGAATAATATGGCACAATG
1 CCAACACCAGTACATAGTACCTGCTAAATAATATGGCACAATG
* *
60684143 CCAACACCAGTACATAGTACCTGCTAAATACTATGGCATAAAT-
1 CCAACACCAGTACATAGTACCTGCTAAATAATATGGCA-CAATG
* ** * * * *
60684186 CCAACACCAATACATAGTATTTGTTAAAAAATATGGCGCAAAG
1 CCAACACCAGTACATAGTACCTGCTAAATAATATGGCACAATG
** * *
60684229 CCAATGCTAGTACGTAGTACCTGCT
1 CCAACACCAGTACATAGTACCTGCT
60684254 GAATTTAAAC
Statistics
Matches: 87, Mismatches: 22, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 2 0.02
43 82 0.94
44 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (43 bp):
CCAACACCAGTACATAGTACCTGCTAAATAATATGGCACAATG
Found at i:60687906 original size:27 final size:27
Alignment explanation
Indices: 60687874--60687950 Score: 86
Period size: 26 Copynumber: 2.9 Consensus size: 27
60687864 CTATCCTAAA
*
60687874 AAACTATCCCGTTTTTATTATCCTGAT
1 AAACTATCCCGTTTTTATTATCCCGAT
*
60687901 AGACTAT-CC-TATTTTATTATCCCGAT
1 AAACTATCCCGT-TTTTATTATCCCGAT
* * *
60687927 AAACTATCTCGTGTTTATTGTCCC
1 AAACTATCCCGTTTTTATTATCCC
60687951 AATAGACAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
25 1 0.02
26 22 0.54
27 17 0.41
28 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.43
Consensus pattern (27 bp):
AAACTATCCCGTTTTTATTATCCCGAT
Found at i:60688138 original size:39 final size:40
Alignment explanation
Indices: 60688082--60688180 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 40
60688072 CACTTCTATC
* *
60688082 ATGATGTCATAACATCTTTCAACTATGCTCTTACTC-GTT
1 ATGATGCCATAAAATCTTTCAACTATGCTCTTACTCAGTT
* * * * * *
60688121 ATGATGCCATAAGATCTTTTAGCTATGGTTTTACTCATTT
1 ATGATGCCATAAAATCTTTCAACTATGCTCTTACTCAGTT
*
60688161 ATGATGCCACAAAATCTTTC
1 ATGATGCCATAAAATCTTTC
60688181 TCCTACTCAT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
39 30 0.61
40 19 0.39
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (40 bp):
ATGATGCCATAAAATCTTTCAACTATGCTCTTACTCAGTT
Found at i:60689189 original size:11 final size:11
Alignment explanation
Indices: 60689173--60689197 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60689163 ATTCCAACAC
60689173 TTCTTAGCATA
1 TTCTTAGCATA
60689184 TTCTTAGCATA
1 TTCTTAGCATA
60689195 TTC
1 TTC
60689198 CAATGCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (11 bp):
TTCTTAGCATA
Found at i:60692227 original size:26 final size:25
Alignment explanation
Indices: 60692198--60692252 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
60692188 TCTTTCCTTT
* * *
60692198 TTTTTTCTTGTCATTTTTAGTTTAGG
1 TTTTCTCTTGTC-TTTTTAGGTTAGA
*
60692224 TTTTCTCTTTTCTTTTTAGGTTAGA
1 TTTTCTCTTGTCTTTTTAGGTTAGA
60692249 TTTT
1 TTTT
60692253 AGTTTTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.11, C:0.09, G:0.13, T:0.67
Consensus pattern (25 bp):
TTTTCTCTTGTCTTTTTAGGTTAGA
Found at i:60693940 original size:40 final size:40
Alignment explanation
Indices: 60693896--60693996 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
60693886 TAATGTCTTT
*
60693896 CAGCTAAGGTCTTACTCATATATGATGCCATAACATATTA
1 CAGCTATGGTCTTACTCATATATGATGCCATAACATATTA
* * * *
60693936 CAGCTATGGTCTTACTCATTTATGATGCCATAGCATCTTT
1 CAGCTATGGTCTTACTCATATATGATGCCATAACATATTA
* *
60693976 TAGCTATGGTCTTACTTATAT
1 CAGCTATGGTCTTACTCATAT
60693997 CGGACCCATG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (40 bp):
CAGCTATGGTCTTACTCATATATGATGCCATAACATATTA
Found at i:60701978 original size:24 final size:24
Alignment explanation
Indices: 60701916--60701979 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
60701906 AAACTTAATT
* * *
60701916 CTAATTAATACCAAATATATTATG
1 CTAATAAATACTAAATATATTATA
*
60701940 CTAATAAATGCTAAATATATTATA
1 CTAATAAATACTAAATATATTATA
* *
60701964 TTAATAAATATTAAAT
1 CTAATAAATACTAAAT
60701980 CTTCTAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (24 bp):
CTAATAAATACTAAATATATTATA
Found at i:60702098 original size:29 final size:29
Alignment explanation
Indices: 60702065--60702152 Score: 124
Period size: 29 Copynumber: 3.0 Consensus size: 29
60702055 TCCACATTGA
60702065 CACGAATTCTCAACGAACAAGTTCTTCAC
1 CACGAATTCTCAACGAACAAGTTCTTCAC
*
60702094 CACGAATTCT-TACAGAACAAGTTCTTCAC
1 CACGAATTCTCAAC-GAACAAGTTCTTCAC
* * *
60702123 TACGAATTCTCAGCGAACAAGTTCTCCAC
1 CACGAATTCTCAACGAACAAGTTCTTCAC
60702152 C
1 C
60702153 TCTTCCACGA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
28 2 0.04
29 48 0.94
30 1 0.02
ACGTcount: A:0.33, C:0.31, G:0.11, T:0.25
Consensus pattern (29 bp):
CACGAATTCTCAACGAACAAGTTCTTCAC
Found at i:60705291 original size:16 final size:16
Alignment explanation
Indices: 60705270--60705324 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
60705260 GTTTGGTTCA
*
60705270 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
60705286 CTGTAACT-GAATAGAT
1 CTGTAA-TGGAATAGAG
*
60705302 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
60705318 CTATAAT
1 CTGTAAT
60705325 CAATGATTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:60705551 original size:26 final size:27
Alignment explanation
Indices: 60705522--60705587 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
60705512 ATTTAATAAA
*
60705522 AATAATAAATAAT-TTAATTATA-TTT
1 AATAATAAATAATATTAAATATACTTT
* *
60705547 GAAT-ATAATTATTATTAAATATACTTT
1 -AATAATAAATAATATTAAATATACTTT
60705574 AATAA-AAATAATAT
1 AATAATAAATAATAT
60705588 ATAATTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 7 0.22
26 21 0.66
27 4 0.12
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
AATAATAAATAATATTAAATATACTTT
Found at i:60705560 original size:58 final size:59
Alignment explanation
Indices: 60705496--60705616 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 59
60705486 TTTTAATAGG
* *
60705496 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTATATT-TGAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTCTGAATATA
* * *
60705554 ATTATTATTAAATATACTTTAATAAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTCTGAATATA
60705613 ATTA
1 ATTA
60705617 ATTTTATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 46 0.81
59 11 0.19
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTCTGAATATA
Found at i:60706495 original size:280 final size:280
Alignment explanation
Indices: 60705986--60706549 Score: 905
Period size: 280 Copynumber: 2.0 Consensus size: 280
60705976 TATACCAAGT
* *
60705986 AAAAATTGCCCTCAACAAAAAAAAGGTACAACCCTTATTTTTCCTTTATTAGTAAATTCCATGAA
1 AAAAATTGCCCTCAACAAAAAAAAGGTACAACCCTTATTTTCCCTTTATTAGCAAATTCCATGAA
* * *
60706051 AAAACAAAGAGAGCCTCTAAAAAAATTATGGGGCAAATCAAAGTTACTTCACCTCAATTAAACAA
66 AAAACAAAGAGAGCCTCTAAAAAAATTATAGGGAAAATCAAAGTTACTTCACATCAATTAAACAA
*
60706116 GGAATGACTAAAAAAAGTTATCACATTTTATCCACTTTATTCTTTTTTAAAATGAAAAATCACTG
131 GGAATGACTAAAAAAAGTTATCACATTTTATCCACTTTATTCTTTTTTAAAATGAAAAACCACTG
* * *
60706181 ACATAAAAGGGAATATGGCAACACCATAAAAGTCAACAATAGACTAAAACTTCAAAAATCTTTTT
196 ACATAAAAGGGAAGATGGAAACACCATAAAAGTCAACAAGAGACTAAAACTTCAAAAATCTTTTT
60706246 AAGTCTACCATACTCTTACC
261 AAGTCTACCATACTCTTACC
* *
60706266 AAAAATTGTCCTCAACAAAGAAAAGGTACAACCCTTA-TTTCCCTTTATTAGCAAATTCCATGAA
1 AAAAATTGCCCTCAACAAAAAAAAGGTACAACCCTTATTTTCCCTTTATTAGCAAATTCCATGAA
* * *
60706330 AAAACAAAGAGAGCTTCTAAATAAATTATAGGGAAAATCAAAGTTACTTCACATTAATTAAACAA
66 AAAACAAAGAGAGCCTCTAAAAAAATTATAGGGAAAATCAAAGTTACTTCACATCAATTAAACAA
* * * * *
60706395 TGAATGACTAAAAATAGTTATCACATTTTTTTTCACTTTATTCTTTTTTAAAATGAAAAACCATT
131 GGAATGACTAAAAAAAGTTATCACA-TTTTATCCACTTTATTCTTTTTTAAAATGAAAAACCACT
* *
60706460 GACGTAAAAGGGAAGATGGAAACACCATGAAAGTCAACAAGAGACTAAAACTTCAAAAATCTTTT
195 GACATAAAAGGGAAGATGGAAACACCATAAAAGTCAACAAGAGACTAAAACTTCAAAAATCTTTT
* *
60706525 TAAGTCTACCATATTCTTACT
260 TAAGTCTACCATACTCTTACC
60706546 AAAA
1 AAAA
60706550 TGAGCTTCTT
Statistics
Matches: 260, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
279 107 0.41
280 153 0.59
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (280 bp):
AAAAATTGCCCTCAACAAAAAAAAGGTACAACCCTTATTTTCCCTTTATTAGCAAATTCCATGAA
AAAACAAAGAGAGCCTCTAAAAAAATTATAGGGAAAATCAAAGTTACTTCACATCAATTAAACAA
GGAATGACTAAAAAAAGTTATCACATTTTATCCACTTTATTCTTTTTTAAAATGAAAAACCACTG
ACATAAAAGGGAAGATGGAAACACCATAAAAGTCAACAAGAGACTAAAACTTCAAAAATCTTTTT
AAGTCTACCATACTCTTACC
Found at i:60712940 original size:16 final size:16
Alignment explanation
Indices: 60712919--60712952 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
60712909 AAGAAAACAT
60712919 AATTAAAACTTAATAA
1 AATTAAAACTTAATAA
60712935 AATTAAAACTTAATAA
1 AATTAAAACTTAATAA
60712951 AA
1 AA
60712953 ACGCGTGTCT
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:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTAAAACTTAATAA
Found at i:60714331 original size:24 final size:24
Alignment explanation
Indices: 60714299--60714347 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
60714289 TTTCTGGCAG
*
60714299 GACTTACATTTGGCAACATACTCT
1 GACTCACATTTGGCAACATACTCT
60714323 GACTCACATTTGGCAACATACTCT
1 GACTCACATTTGGCAACATACTCT
60714347 G
1 G
60714348 TTGCATGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (24 bp):
GACTCACATTTGGCAACATACTCT
Found at i:60715911 original size:15 final size:15
Alignment explanation
Indices: 60715891--60715922 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
60715881 GCAAAACAAG
60715891 AAAAAAGTAAAAGAAA
1 AAAAAAGT-AAAGAAA
60715907 AAAAAAGTAAAGAAA
1 AAAAAAGTAAAGAAA
60715922 A
1 A
60715923 CACACAGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAAAAGTAAAGAAA
Found at i:60719902 original size:12 final size:12
Alignment explanation
Indices: 60719874--60719902 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
60719864 TATACCTATA
60719874 TGGTAGAATTTT
1 TGGTAGAATTTT
60719886 T-GTAGAATTTT
1 TGGTAGAATTTT
60719897 TGGTAG
1 TGGTAG
60719903 GGCCAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:60721081 original size:37 final size:37
Alignment explanation
Indices: 60721031--60721109 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60721021 TTATTACGAA
* * *
60721031 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
60721068 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
60721105 GTCTT
1 GTCTT
60721110 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:60721304 original size:49 final size:48
Alignment explanation
Indices: 60721227--60721384 Score: 273
Period size: 49 Copynumber: 3.2 Consensus size: 48
60721217 GCCCTTCGGG
60721227 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
60721277 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
*
60721326 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-AC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
60721373 ACTTTCACATTC
1 ACTTTCACATTC
60721385 TCAAAGTAAG
Statistics
Matches: 106, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
47 14 0.13
49 88 0.83
50 4 0.04
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
Found at i:60721703 original size:24 final size:23
Alignment explanation
Indices: 60721655--60721712 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
60721645 TAATCAAACA
60721655 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
60721679 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
60721703 TTATT-TTATA
1 TTATTATTATA
60721713 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:60729539 original size:32 final size:32
Alignment explanation
Indices: 60729467--60729705 Score: 167
Period size: 32 Copynumber: 7.5 Consensus size: 32
60729457 AGAACGGCTA
* * * **
60729467 AAAGCCATAAGTA-CAGTAATGTGATTAGCAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCAC
*
60729498 AAAGCCATCAATAGCAGTGATATGATCGGCAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCAC
* * *** * *
60729530 ACAGGCATCAGTAATGGTAACATGATCGGCAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCAC
* *
60729562 AAAGCCATCAGTAGCATTGATATGATCAGCAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCAC
** ** * * *
60729594 ACTGCCATCAGTAATAATGAAATGACCGGCAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCAC
* * * * * *
60729626 ACAGCCATCGGTAACAGTAATATGATTGACAC
1 AAAGCCATCAGTAGCAGTGATATGATCGGCAC
*** *
60729658 AAAGCCATCAGTAATGGT-ACTATGACCGGCAC
1 AAAGCCATCAGTAGCAGTGA-TATGATCGGCAC
60729690 AAAGCCATCAGTAGCA
1 AAAGCCATCAGTAGCA
60729706 TCGCAACAAA
Statistics
Matches: 156, Mismatches: 50, Indels: 3
0.75 0.24 0.01
Matches are distributed among these distances:
31 12 0.08
32 144 0.92
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (32 bp):
AAAGCCATCAGTAGCAGTGATATGATCGGCAC
Found at i:60729595 original size:64 final size:64
Alignment explanation
Indices: 60729494--60729705 Score: 250
Period size: 64 Copynumber: 3.3 Consensus size: 64
60729484 AATGTGATTA
* * * *
60729494 GCACAAAGCCATCAATAGCAGTGATATGATCGGCACACAGGCATCAGTAATGGTAACATGATCG
1 GCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAGCCATCAGTAATGGTAACATGACCG
* * **
60729558 GCACAAAGCCATCAGTAGCATTGATATGATCAGCACACTGCCATCAGTAATAATGAA-ATGACCG
1 GCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAGCCATCAGTAATGGT-AACATGACCG
* * * * * *
60729622 GCACACAGCCATCGGTAACAGTAATATGAT-TGACACAAAGCCATCAGTAATGGT-ACTATGACC
1 GCACAAAGCCATCAGTAGCAGTGATATGATCAG-CACACAGCCATCAGTAATGGTAAC-ATGACC
60729685 G
64 G
60729686 GCACAAAGCCATCAGTAGCA
1 GCACAAAGCCATCAGTAGCA
60729706 TCGCAACAAA
Statistics
Matches: 123, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 119 0.97
65 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (64 bp):
GCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAGCCATCAGTAATGGTAACATGACCG
Found at i:60729682 original size:96 final size:95
Alignment explanation
Indices: 60729493--60729702 Score: 224
Period size: 96 Copynumber: 2.2 Consensus size: 95
60729483 TAATGTGATT
* ** * * * * **
60729493 AGCACAAAGCCATCAATAGCAGTGATATGATCGGCACACAGGCATCAGTAATGGTAACATGATCG
1 AGCACAAAGCCATCAGTAATAATGAAATGACCGGCACACAGCCATCAGTAACAGTAACATGATCG
* * *
60729558 GCACAAAGCCATCAGTAGCATTGATATGATC
66 ACACAAAGCCATCAGTA-CATGGATATGACC
** * * *
60729589 AGCACACTGCCATCAGTAATAATGAAATGACCGGCACACAGCCATCGGTAACAGTAATATGATTG
1 AGCACAAAGCCATCAGTAATAATGAAATGACCGGCACACAGCCATCAGTAACAGTAACATGATCG
60729654 ACACAAAGCCATCAGTA-ATGGTACTATGACC
66 ACACAAAGCCATCAGTACATGG-A-TATGACC
*
60729685 GGCACAAAGCCATCAGTA
1 AGCACAAAGCCATCAGTA
60729703 GCATCGCAAC
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
94 3 0.03
95 1 0.01
96 88 0.96
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (95 bp):
AGCACAAAGCCATCAGTAATAATGAAATGACCGGCACACAGCCATCAGTAACAGTAACATGATCG
ACACAAAGCCATCAGTACATGGATATGACC
Found at i:60729776 original size:27 final size:27
Alignment explanation
Indices: 60729721--60729776 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
60729711 ACAAAGCTGA
* *
60729721 CAGTAATAGTATATGTGGCCAAGCTAC
1 CAGTAAGAGTATATGTGGCCAAGCCAC
60729748 CAGTAAGAGTGAT-TGTGG-CAGAGCCAC
1 CAGTAAGAGT-ATATGTGGCCA-AGCCAC
60729775 CA
1 CA
60729777 ATATAGTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 2 0.08
27 21 0.84
28 2 0.08
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (27 bp):
CAGTAAGAGTATATGTGGCCAAGCCAC
Found at i:60729962 original size:27 final size:27
Alignment explanation
Indices: 60729923--60730346 Score: 451
Period size: 27 Copynumber: 15.7 Consensus size: 27
60729913 CCACCAGGGC
*
60729923 ATTATGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
60729950 ATTACAGTAATTTTACCCTACAGAGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
60729977 ATTACGATCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* **
60730004 ATTACGGTCATTTTACCCTATAAAGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
60730031 ACTACGATCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
60730058 ATTATGGTCATTTTACCCTACCGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
60730085 ATTACGGTCATTTTATCCTACGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
60730112 ATTTCGGTTATTTTACCCTA-TGGAGGC
1 ATTACGGTCATTTTACCCTACAGG-GGT
*
60730139 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
60730166 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
60730193 ATTACGGTCATTTTATCCTATC-GGGGT
1 ATTACGGTCATTTTACCCTA-CAGGGGT
* *
60730220 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
60730247 ATTACGGTCATTTTATCCTATC-GGGGT
1 ATTACGGTCATTTTACCCTA-CAGGGGT
* * **
60730274 ATTACGGTCATTTTACCCTATAAGGCC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * **
60730301 ATTTCAGTCATTTTACCC-ATTGAGGGT
1 ATTACGGTCATTTTACCCTACAG-GGGT
* *
60730328 ATTTCGATCATTTTACCCT
1 ATTACGGTCATTTTACCCT
60730347 TCGAAGGTAT
Statistics
Matches: 329, Mismatches: 60, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.01
27 322 0.98
28 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:60730044 original size:81 final size:81
Alignment explanation
Indices: 60729923--60730346 Score: 512
Period size: 81 Copynumber: 5.2 Consensus size: 81
60729913 CCACCAGGGC
* * * * *
60729923 ATTATGGTCATTTTACCCTACAGGGGTATTACAGTAATTTTACCCTACAGAGGCATTACGATCAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGAGGCATTACGGTCAT
*
60729988 TTTACCCTACAGGGGT
66 TTTACCCTATAGGGGT
* ** * * * *
60730004 ATTACGGTCATTTTACCCTATAAAGGTACTACGATCATTTTACCCTATAGGGGCATTATGGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGAGGCATTACGGTCAT
**
60730069 TTTACCCTACCGGGGT
66 TTTACCCTATAGGGGT
* * * * *
60730085 ATTACGGTCATTTTATCCTACGGGGGTATTTCGGTTATTTTACCCTATGGAGGCATTACGGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGAGGCATTACGGTCAT
60730150 TTTACCCTATAGGGGT
66 TTTACCCTATAGGGGT
* * * * *
60730166 ATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTATCCTATCGGGGTATTACGGTCAT
1 ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGAGGCATTACGGTCAT
*
60730231 TTTACCCTATAGGGGC
66 TTTACCCTATAGGGGT
* * *
60730247 ATTACGGTCATTTTATCCTATC-GGGGTATTACGGTCATTTTACCCTATA-AGGCCATTTCAGTC
1 ATTACGGTCATTTTACCCTA-CAGGGGTATTACGGTCATTTTACCCTATAGAGG-CATTACGGTC
*
60730310 ATTTTACCC-ATTGAGGGT
64 ATTTTACCCTATAG-GGGT
* *
60730328 ATTTCGATCATTTTACCCT
1 ATTACGGTCATTTTACCCT
60730347 TCGAAGGTAT
Statistics
Matches: 290, Mismatches: 50, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
80 5 0.02
81 284 0.98
82 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (81 bp):
ATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGAGGCATTACGGTCAT
TTTACCCTATAGGGGT
Found at i:60730355 original size:27 final size:27
Alignment explanation
Indices: 60730308--60730360 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
60730298 GCCATTTCAG
*
60730308 TCATTTTACCCATTGAGGGTATTTCGA
1 TCATTTTACCCATTGAAGGTATTTCGA
60730335 TCATTTTACCC-TTCGAAGGTATTTCG
1 TCATTTTACCCATT-GAAGGTATTTCG
60730361 GTCCAGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCATTGAAGGTATTTCGA
Found at i:60735402 original size:22 final size:21
Alignment explanation
Indices: 60735355--60735411 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
60735345 AAACACAATG
** *
60735355 AAAATTAATAAAATAAATGAAT
1 AAAA-TAATAAAATAAAAAAAC
60735377 AAAATAATAATAATAAAAAAAC
1 AAAATAATAA-AATAAAAAAAC
*
60735399 AAAAT-TTAAAATA
1 AAAATAATAAAATA
60735412 GGGAATAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.13
21 9 0.30
22 17 0.57
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAATAATAAAATAAAAAAAC
Found at i:60738979 original size:22 final size:24
Alignment explanation
Indices: 60738913--60738979 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 24
60738903 ACTTGGACTC
60738913 AAATAAAATCC-AAGTTAAAAATAAG
1 AAATAAAA-CCTAA-TTAAAAATAAG
**
60738938 AAATAAAA-CTGTTTAGAAAAT-A-
1 AAATAAAACCTAATTA-AAAATAAG
60738960 AAATAAAACCTAATTAAAAA
1 AAATAAAACCTAATTAAAAA
60738980 GCCTAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
22 12 0.34
23 10 0.29
24 5 0.14
25 8 0.23
ACGTcount: A:0.64, C:0.07, G:0.06, T:0.22
Consensus pattern (24 bp):
AAATAAAACCTAATTAAAAATAAG
Found at i:60749509 original size:30 final size:30
Alignment explanation
Indices: 60749440--60749527 Score: 88
Period size: 32 Copynumber: 2.9 Consensus size: 30
60749430 GTTGAAGTAT
* * *
60749440 GGGTTAAATTGTAAATTTGTGAAAAGTAAAAA
1 GGGTTAAATTGTAAATAT-T-AAAATTTAAAA
*
60749472 GGGTTAAATTGTAAATATTCAAAATTTTAAA
1 GGGTTAAATTGTAAATATT-AAAATTTAAAA
**
60749503 -GGTTAAATTAAAAATATTAAAATTT
1 GGGTTAAATTGTAAATATTAAAATTT
60749528 GAAGGACCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 7 0.14
30 16 0.33
31 9 0.18
32 17 0.35
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (30 bp):
GGGTTAAATTGTAAATATTAAAATTTAAAA
Found at i:60753844 original size:21 final size:21
Alignment explanation
Indices: 60753820--60753865 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
60753810 AAGTTTCTAC
60753820 GGAAAAATGTACCATTTGTAT
1 GGAAAAATGTACCATTTGTAT
* * *
60753841 GGAAGAATGTATCGTTTGTAT
1 GGAAAAATGTACCATTTGTAT
60753862 GGAA
1 GGAA
60753866 CGATCAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.33
Consensus pattern (21 bp):
GGAAAAATGTACCATTTGTAT
Found at i:60765070 original size:20 final size:19
Alignment explanation
Indices: 60765018--60765073 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
60765008 ATCAATACCA
*
60765018 ATATAAAATATCGATACTT
1 ATATAAAGTATCGATACTT
*
60765037 ATTCCTAAAG-ATCGATACTTT
1 A-T-ATAAAGTATCGATAC-TT
60765058 ATATAAAGTATCGATA
1 ATATAAAGTATCGATA
60765074 AAAATTAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 6 0.20
20 17 0.57
21 7 0.23
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (19 bp):
ATATAAAGTATCGATACTT
Found at i:60769121 original size:12 final size:12
Alignment explanation
Indices: 60769104--60769130 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60769094 ATTCCGAAGT
60769104 ATATATATATAC
1 ATATATATATAC
60769116 ATATATATATAC
1 ATATATATATAC
60769128 ATA
1 ATA
60769131 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:60769661 original size:27 final size:28
Alignment explanation
Indices: 60769577--60769674 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
60769567 CATGAGATTG
* * * *
60769577 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
60769606 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60769634 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60769661 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60769675 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60769685 original size:27 final size:27
Alignment explanation
Indices: 60769605--60769687 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
60769595 TAAATTGTAC
* *
60769605 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
60769633 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
60769660 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
60769687 A
1 A
60769688 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:60782268 original size:45 final size:45
Alignment explanation
Indices: 60782199--60782381 Score: 212
Period size: 45 Copynumber: 4.1 Consensus size: 45
60782189 ACGTGTACCA
* *
60782199 GGTACCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * *
60782244 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGGTTCCACTG
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * *
60782289 GGTA-CTATTGAATATGAAGGTGGTTGTTATGTGCTGATTCCACCG
1 GGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
* * * *
60782334 AGTATCATTGACTATAAGGGT-GATGCTATGTGC-GA-TCCACCG
1 GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
*
60782376 TGTATC
1 GGTATC
60782382 TTTCGAAGTG
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
42 12 0.10
43 2 0.02
44 11 0.09
45 94 0.78
46 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (45 bp):
GGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
Found at i:60786377 original size:29 final size:28
Alignment explanation
Indices: 60786339--60786462 Score: 115
Period size: 29 Copynumber: 4.3 Consensus size: 28
60786329 AAAATATGTT
60786339 TTTGTGGCAATCTCTATTAAAAGGAAGC
1 TTTGTGGCAATCTCTATTAAAAGGAAGC
* * *
60786367 ATTTGTAGCAATATCTGTTAAAAGGAAGTC
1 -TTTGTGGCAATCTCTATTAAAAGGAAG-C
** * * *
60786397 TTTGTGGTGACCTCTGTTAAAAGGATGCC
1 TTTGTGGCAATCTCTATTAAAAGGAAG-C
*
60786426 TTTGTGGCAAACTCTATTAAAA-GAATGTC
1 TTTGTGGCAATCTCTATTAAAAGGAA-G-C
60786455 TTTGTGGC
1 TTTGTGGC
60786463 TACCTCTGTT
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
28 2 0.03
29 74 0.96
30 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (28 bp):
TTTGTGGCAATCTCTATTAAAAGGAAGC
Found at i:60786418 original size:58 final size:58
Alignment explanation
Indices: 60786334--60786475 Score: 164
Period size: 58 Copynumber: 2.4 Consensus size: 58
60786324 CTCTGAAAAT
* * * * *
60786334 ATGTTTTTGTGGCAATCTCTATTAAAAGGAAGCATTTGTAGCAATA-TCTGTTAAAAGGA
1 ATGTCTTTGTGGCTACCTCTGTTAAAAGGAAGCATTTGTAGCAA-ACTCTATTAAAA-GA
* * *
60786393 A-GTCTTTGTGG-TGACCTCTGTTAAAAGGATGCCTTTGTGGCAAACTCTATTAAAAGA
1 ATGTCTTTGTGGCT-ACCTCTGTTAAAAGGAAGCATTTGTAGCAAACTCTATTAAAAGA
60786450 ATGTCTTTGTGGCTACCTCTGTTAAA
1 ATGTCTTTGTGGCTACCTCTGTTAAA
60786476 TGGATCCTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
57 4 0.06
58 65 0.92
59 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (58 bp):
ATGTCTTTGTGGCTACCTCTGTTAAAAGGAAGCATTTGTAGCAAACTCTATTAAAAGA
Found at i:60786469 original size:29 final size:29
Alignment explanation
Indices: 60786380--60786475 Score: 115
Period size: 29 Copynumber: 3.3 Consensus size: 29
60786370 TGTAGCAATA
60786380 TCTGTTAAAAGGAA-GTCTTTGTGG-TGACC
1 TCTGTTAAAA-GAATGTCTTTGTGGCT-ACC
* * * *
60786409 TCTGTTAAAAGGATGCCTTTGTGGCAAAC
1 TCTGTTAAAAGAATGTCTTTGTGGCTACC
*
60786438 TCTATTAAAAGAATGTCTTTGTGGCTACC
1 TCTGTTAAAAGAATGTCTTTGTGGCTACC
60786467 TCTGTTAAA
1 TCTGTTAAA
60786476 TGGATCCTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 2 0.04
29 53 0.96
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (29 bp):
TCTGTTAAAAGAATGTCTTTGTGGCTACC
Found at i:60786487 original size:29 final size:29
Alignment explanation
Indices: 60786380--60786493 Score: 94
Period size: 29 Copynumber: 3.9 Consensus size: 29
60786370 TGTAGCAATA
60786380 TCTGTTAAAAGGAAGT-C-TTTGTGG-TGACC
1 TCTGTTAAAAGG-A-TCCTTTTGTGGCT-ACC
* *
60786409 TCTGTTAAAAGGATGCC-TTTGTGGCAAAC
1 TCTGTTAAAAGGAT-CCTTTTGTGGCTACC
* * *
60786438 TCTATTAAAAGAAT-GTCTTTGTGGCTACC
1 TCTGTTAAAAGGATCCT-TTTGTGGCTACC
*
60786467 TCTGTTAAATGGATCCTTTTGTGGCTA
1 TCTGTTAAAAGGATCCTTTTGTGGCTA
60786494 TCTTAGCCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 65 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.37
Consensus pattern (29 bp):
TCTGTTAAAAGGATCCTTTTGTGGCTACC
Found at i:60788556 original size:25 final size:25
Alignment explanation
Indices: 60788526--60788658 Score: 112
Period size: 25 Copynumber: 5.4 Consensus size: 25
60788516 GTCCTGTTAT
60788526 ATGGCTCTTTAGAGCTTCCCGATTA
1 ATGGCTCTTTAGAGCTTCCCGATTA
* * *
60788551 AAGGCTCTTTTTGAGCTTCCTGATTA
1 ATGGCTC-TTTAGAGCTTCCCGATTA
***
60788577 ATGGCTC-CCCGAAGCTTCCCGA-T-
1 ATGGCTCTTTAG-AGCTTCCCGATTA
* * *
60788600 ATGGCTCGCTTA-AACTTCCCGATTT
1 ATGGCTC-TTTAGAGCTTCCCGATTA
* *
60788625 ATGGCTATCTAGAGCTTCCCGATTA
1 ATGGCTCTTTAGAGCTTCCCGATTA
60788650 ATGGCTCTT
1 ATGGCTCTT
60788659 CGAAGCTAAC
Statistics
Matches: 82, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
23 16 0.20
24 5 0.06
25 39 0.48
26 22 0.27
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (25 bp):
ATGGCTCTTTAGAGCTTCCCGATTA
Found at i:60788785 original size:25 final size:24
Alignment explanation
Indices: 60788735--60788794 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
60788725 AACCCGGATA
***
60788735 AGCTTCCCGTTAATGGCTCTCTAG
1 AGCTTCCCGTTAATGGCTCGAGAG
*
60788759 AGCTTCCTGTTATATGGCTCGAGAG
1 AGCTTCCCGTTA-ATGGCTCGAGAG
60788784 AGGGCTTCCCG
1 A--GCTTCCCG
60788795 ATTATGTGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 11 0.39
25 10 0.36
27 7 0.25
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.30
Consensus pattern (24 bp):
AGCTTCCCGTTAATGGCTCGAGAG
Found at i:60790631 original size:22 final size:22
Alignment explanation
Indices: 60790579--60790632 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
60790569 TCCAAACTTC
*
60790579 TACCGATACTTGAGAACCCTTT
1 TACCGATACATGAGAACCCTTT
* *
60790601 TACCAATACATGGGAACCCTTT
1 TACCGATACATGAGAACCCTTT
*
60790623 TACTGATACA
1 TACCGATACA
60790633 ATTCTAGTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (22 bp):
TACCGATACATGAGAACCCTTT
Found at i:60791665 original size:44 final size:44
Alignment explanation
Indices: 60791575--60791662 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 44
60791565 TAAATCATAA
60791575 TATTTAATTATTCTCATTAAACACAAATTAAAATTTTAGTTTTT
1 TATTTAATTATTCTCATTAAACACAAATTAAAATTTTAGTTTTT
* * ** *
60791619 TATTT-ATTATTTTCATTAAATACCCATTAAAATTTTACTTTTT
1 TATTTAATTATTCTCATTAAACACAAATTAAAATTTTAGTTTTT
60791662 T
1 T
60791663 TATGTAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 34 0.87
44 5 0.13
ACGTcount: A:0.35, C:0.10, G:0.01, T:0.53
Consensus pattern (44 bp):
TATTTAATTATTCTCATTAAACACAAATTAAAATTTTAGTTTTT
Found at i:60793982 original size:31 final size:31
Alignment explanation
Indices: 60793927--60793987 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 31
60793917 TTACAGCCTC
60793927 ATGACTTAAATAAAATTTTTTTGAATAGTTCA
1 ATGACTTAAATAAAA-TTTTTTGAATAGTTCA
60793959 ATGACTTAAACTAAAA-TTTTTGAATAGTT
1 ATGACTTAAA-TAAAATTTTTTGAATAGTT
60793988 AAGTGAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 13 0.46
32 10 0.36
33 5 0.18
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.43
Consensus pattern (31 bp):
ATGACTTAAATAAAATTTTTTGAATAGTTCA
Found at i:60794418 original size:3 final size:3
Alignment explanation
Indices: 60794410--60794438 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
60794400 ATTCGAACTT
60794410 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
60794439 GTTTTTACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:60798055 original size:11 final size:11
Alignment explanation
Indices: 60798039--60798065 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
60798029 ATTCTGTATT
60798039 CCATCCTTGAC
1 CCATCCTTGAC
60798050 CCATCCTTGAC
1 CCATCCTTGAC
60798061 CCATC
1 CCATC
60798066 TCCTTATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.48, G:0.07, T:0.26
Consensus pattern (11 bp):
CCATCCTTGAC
Found at i:60800334 original size:3 final size:3
Alignment explanation
Indices: 60800326--60800364 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
60800316 TTGTTTTGTG
60800326 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
60800365 GTGAGGAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:60809004 original size:16 final size:18
Alignment explanation
Indices: 60808977--60809009 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60808967 TAGAATTGGG
60808977 TTGAGAAAATTA-TTTAA
1 TTGAGAAAATTAGTTTAA
60808994 TTGAG-AAATTAGTTTA
1 TTGAGAAAATTAGTTTA
60809010 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAGTTTAA
Found at i:60839559 original size:15 final size:15
Alignment explanation
Indices: 60839539--60839572 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
60839529 TCACTATTAT
60839539 GTCTTTTGTGTTTCC
1 GTCTTTTGTGTTTCC
*
60839554 GTCTTTTGTGTTTTC
1 GTCTTTTGTGTTTCC
60839569 GTCT
1 GTCT
60839573 ATTATGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.18, G:0.21, T:0.62
Consensus pattern (15 bp):
GTCTTTTGTGTTTCC
Found at i:60840597 original size:13 final size:13
Alignment explanation
Indices: 60840581--60840647 Score: 59
Period size: 13 Copynumber: 5.0 Consensus size: 13
60840571 TAAAAAATTC
60840581 ATATAATCATTTT
1 ATATAATCATTTT
60840594 ATAT-ATGCATTTT
1 ATATAAT-CATTTT
*
60840607 CCATATAA-C-TGGTTC
1 --ATATAATCAT--TTT
60840622 ATATAATCATTTT
1 ATATAATCATTTT
60840635 ATATAATCATTTT
1 ATATAATCATTTT
60840648 CCTCTTGATG
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
12 2 0.05
13 32 0.73
14 2 0.05
15 7 0.16
16 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.04, T:0.49
Consensus pattern (13 bp):
ATATAATCATTTT
Found at i:60840612 original size:41 final size:41
Alignment explanation
Indices: 60840567--60840649 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
60840557 TAACTATTTG
60840567 CATATAAAAAATTCATATAATCATTTTATAT-ATGCATTTTC
1 CATATAAAAAATTCATATAATCATTTTATATAAT-CATTTTC
****
60840608 CATATAACTGGTTCATATAATCATTTTATATAATCATTTTC
1 CATATAAAAAATTCATATAATCATTTTATATAATCATTTTC
60840649 C
1 C
60840650 TCTTGATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 35 0.95
42 2 0.05
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.45
Consensus pattern (41 bp):
CATATAAAAAATTCATATAATCATTTTATATAATCATTTTC
Found at i:60843032 original size:17 final size:17
Alignment explanation
Indices: 60843010--60843044 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
60843000 ATATCATATA
60843010 AGGGTAACACACACATG
1 AGGGTAACACACACATG
60843027 AGGGTAACACACACATG
1 AGGGTAACACACACATG
60843044 A
1 A
60843045 TGAGGCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (17 bp):
AGGGTAACACACACATG
Found at i:60843993 original size:17 final size:16
Alignment explanation
Indices: 60843901--60844049 Score: 79
Period size: 17 Copynumber: 8.7 Consensus size: 16
60843891 ATTTTAATAG
*
60843901 ATTTAATATTAAATATA
1 ATTTAATATTATAT-TA
* *
60843918 ATTTAATACTTATCTTG
1 ATTTAATA-TTATATTA
* *
60843935 A--TAGTATTTTATTA
1 ATTTAATATTATATTA
60843949 ATTTAATATTAAAGTGATT-
1 ATTTAATATT--A-T-ATTA
60843968 ATCTTAATATTATATTAA
1 AT-TTAATATTATATT-A
*
60843986 ATTTAATATTAGATTA
1 ATTTAATATTATATTA
* *
60844002 ATTTAATCTAATATTTA
1 ATTTAATATTATA-TTA
*
60844019 TCTTGATAAGTATTATATTA
1 -ATT--TAA-TATTATATTA
60844039 ATTTAATATTA
1 ATTTAATATTA
60844050 AAATGATTAA
Statistics
Matches: 100, Mismatches: 17, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
14 6 0.06
15 4 0.04
16 25 0.25
17 29 0.29
18 9 0.09
19 5 0.05
20 17 0.17
21 5 0.05
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (16 bp):
ATTTAATATTATATTA
Found at i:60854584 original size:155 final size:156
Alignment explanation
Indices: 60854400--60854708 Score: 467
Period size: 155 Copynumber: 2.0 Consensus size: 156
60854390 GGAAATTAAA
* *
60854400 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCTCCGTTCAACGATTTTATTCTAAAATTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAAATTGTTTT
* * * *
60854465 ATTTCAAAAAACGAGTAAAAT-AAAATCGTTTCGAGATCGATTCCCGCCGTTCAACGATTTTATT
66 ATTTCAAAAAACGAGTAAAATAAAAATAGTTTCGAGATCAATTCCCGCCGTTCAACAATTTCATT
*
60854529 CCAAATTTGTTTTATTTCCAAAAATG
131 CCAAATTTGGTTTATTTCCAAAAATG
* * **
60854555 AGTAATATAAAAATCGTTTCGGGATTGATTCCCGCCTTTCAACGATTTTATTCCAATTTTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAAATTGTTTT
* * * * *
60854620 ATTTCCAAAAATGAGTAAAATAAAAATATTTTCGGGATTAATTCCCGCCGTTCAACAATTTCATT
66 ATTTCAAAAAACGAGTAAAATAAAAATAGTTTCGAGATCAATTCCCGCCGTTCAACAATTTCATT
60854685 CCAAATTTGGTTTATTTCCAAAAA
131 CCAAATTTGGTTTATTTCCAAAAA
60854709 AGAGATATTA
Statistics
Matches: 137, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
155 78 0.57
156 59 0.43
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (156 bp):
AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAAATTGTTTT
ATTTCAAAAAACGAGTAAAATAAAAATAGTTTCGAGATCAATTCCCGCCGTTCAACAATTTCATT
CCAAATTTGGTTTATTTCCAAAAATG
Found at i:60854598 original size:78 final size:78
Alignment explanation
Indices: 60854400--60854708 Score: 467
Period size: 78 Copynumber: 4.0 Consensus size: 78
60854390 GGAAATTAAA
* * *
60854400 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCTCCGTTCAACGATTTTATTCTAAAATTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
* *
60854465 ATTTCAAAAAACG
66 ATTTCCAAAAATG
* *
60854478 AGTAAAAT-AAAATCGTTTCGAGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
60854542 ATTTCCAAAAATG
66 ATTTCCAAAAATG
* * *
60854555 AGTAATATAAAAATCGTTTCGGGATTGATTCCCGCCTTTCAACGATTTTATTCCAATTTTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
60854620 ATTTCCAAAAATG
66 ATTTCCAAAAATG
** * * * *
60854633 AGTAAAATAAAAATATTTTCGGGATTAATTCCCGCCGTTCAACAATTTCATTCCAAATTTGGTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
60854698 ATTTCCAAAAA
66 ATTTCCAAAAA
60854709 AGAGATATTA
Statistics
Matches: 209, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
77 69 0.33
78 140 0.67
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (78 bp):
AGTAAAATAAAAATCGTTTCGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
ATTTCCAAAAATG
Found at i:60854830 original size:82 final size:84
Alignment explanation
Indices: 60854717--60854875 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 84
60854707 AAAGAGATAT
** * ** *
60854717 TAAATTAAATAAAATCTGTTTTGGGATTTATT-CCGCCGTTTAAAAAGATTTTGTTTGATTTTAT
1 TAAATTAAATAAAATCTGTTTCAGGATTTATTACCGCCGTTTAAAAAGATTTTATTCAATATTAT
60854781 TTTGTTTCCAAATTCGAAC
66 TTTGTTTCCAAATTCGAAC
* * *
60854800 TAAATTAAAT-AAATCTGTTTCAGGATTTATTATCGCCGTTTAACAAGATTTTATTCAATATTGT
1 TAAATTAAATAAAATCTGTTTCAGGATTTATTACCGCCGTTTAAAAAGATTTTATTCAATATTAT
60854864 TTTGTTTCCAAA
66 TTTGTTTCCAAA
60854876 CAAAGACGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
82 19 0.29
83 47 0.71
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (84 bp):
TAAATTAAATAAAATCTGTTTCAGGATTTATTACCGCCGTTTAAAAAGATTTTATTCAATATTAT
TTTGTTTCCAAATTCGAAC
Found at i:60856917 original size:21 final size:20
Alignment explanation
Indices: 60856893--60856931 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60856883 GCATATAAAT
60856893 TATAACTCATAATTATTTTTG
1 TATAACT-ATAATTATTTTTG
*
60856914 TATAACTTTAATTATTTT
1 TATAACTATAATTATTTT
60856932 CCAAAATCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (20 bp):
TATAACTATAATTATTTTTG
Found at i:60857175 original size:16 final size:16
Alignment explanation
Indices: 60857154--60857185 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60857144 ATTTTGTTGC
*
60857154 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
60857170 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
60857186 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:60857476 original size:51 final size:51
Alignment explanation
Indices: 60857403--60857603 Score: 230
Period size: 51 Copynumber: 4.0 Consensus size: 51
60857393 ATTAATGATA
* * * * *
60857403 CCGGTTCACATAGTAACTTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* *
60857454 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * ***
60857505 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATACGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
*
60857555 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
60857604 TTCACTTTCA
Statistics
Matches: 124, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
49 4 0.03
50 41 0.33
51 76 0.61
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:60857589 original size:101 final size:102
Alignment explanation
Indices: 60857411--60857595 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
60857401 TACCGGTTCA
* **
60857411 CATAGTAACTTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAACCTGCACATAGTACTACACATACGACCATCACTATCCGATACACGTAGTAGCCTGCA
60857476 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * *
60857513 CATAGTAGCCTGCACATAGTACTACACATACGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAACCTGCACATAGTACTACACATACGACC-ATCACTATCCGATACACGTAGTAGCCTGC
60857576 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
60857596 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 40 0.53
102 32 0.42
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAACCTGCACATAGTACTACACATACGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:60861881 original size:22 final size:22
Alignment explanation
Indices: 60861853--60861897 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
60861843 AATTTACGAA
60861853 TATGTAATTCACTAACACATTC
1 TATGTAATTCACTAACACATTC
60861875 TATGTAATTCACTAACACATTC
1 TATGTAATTCACTAACACATTC
60861897 T
1 T
60861898 GGTATACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (22 bp):
TATGTAATTCACTAACACATTC
Found at i:60864521 original size:51 final size:51
Alignment explanation
Indices: 60864463--60864653 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 51
60864453 GATACGGGTT
* * *
60864463 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
* *
60864514 CACATAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTA
* * *** *
60864565 CGCATAGTAGCCTGCACATAGTACTACAAATACGACCTATCA-T-TTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTA
* *
60864615 CACGTAGTAGCCTGCATATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
60864654 GACTTTCACT
Statistics
Matches: 115, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
49 2 0.02
50 38 0.33
51 72 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
Found at i:60864542 original size:12 final size:13
Alignment explanation
Indices: 60864463--60864543 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 13
60864453 GATACGGGTT
*
60864463 CACATAGTAGCCTG
1 CACATAGTA-CCTA
60864477 CACATAGTA-CTA
1 CACATAGTACCTA
60864489 CACAT-GTGACC-A
1 CACATAGT-ACCTA
60864501 TCAC-TA-T-CCGATA
1 -CACATAGTACC--TA
60864514 CACATAGTAGCCTA
1 CACATAGTA-CCTA
60864528 CACATAGTA-CTA
1 CACATAGTACCTA
60864540 CACA
1 CACA
60864544 CGTGATCGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 24
0.69 0.01 0.30
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 21 0.38
13 7 0.13
14 21 0.38
16 2 0.04
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (13 bp):
CACATAGTACCTA
Found at i:60864672 original size:101 final size:102
Alignment explanation
Indices: 60864460--60864683 Score: 238
Period size: 101 Copynumber: 2.2 Consensus size: 102
60864450 AATGATACGG
* **
60864460 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACATAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACCATCACTATCCGATACACATAGTAGC
* **
60864525 CTACACATAGTACTACACACGTGATCGAAGCTATCTG
66 CTACACATAGTACTACACACGTGATCCAAGCTATCAC
* * ** * *
60864562 GTACGCATAGTAGCCTGCACATAGTACTACAAATACGACCTATCA-T-TTTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACC-ATCACTATCCGATACACATAGTAG
* * * *
60864625 CCTGCATATAGTACTACACACGTGA-CCATGACTTTCAC
65 CCTACACATAGTACTACACACGTGATCCAAG-CTATCAC
* * *
60864663 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
60864684 CAATCCATGC
Statistics
Matches: 99, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
100 3 0.03
101 56 0.57
102 36 0.36
103 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACCATCACTATCCGATACACATAGTAGC
CTACACATAGTACTACACACGTGATCCAAGCTATCAC
Found at i:60877036 original size:24 final size:24
Alignment explanation
Indices: 60877009--60877067 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
60876999 CCTATTTATG
*
60877009 TAAGGGTTTGCATACTAGATCACA
1 TAAGGGTTTGCATACTAAATCACA
*
60877033 TAAGGGTTCGCATACTAAATCACA
1 TAAGGGTTTGCATACTAAATCACA
*
60877057 TAAGGTTTTGC
1 TAAGGGTTTGC
60877068 TTGAAGGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (24 bp):
TAAGGGTTTGCATACTAAATCACA
Found at i:60877077 original size:130 final size:129
Alignment explanation
Indices: 60876883--60877146 Score: 350
Period size: 130 Copynumber: 2.0 Consensus size: 129
60876873 GCACATACAA
** *
60876883 GGTTCGCATAATAGATCACATAAGGCTTCGTGTACTAAATTACATAAGGTTTTACATGAAGGTTC
1 GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
* ** *
60876948 -TCATATCGGCTACAGTTCGTCTATCAATTTATAACAGAGTTAGTATGTATACCTATTTATGTAA
66 GT-ATATCAGCTACAGTTCACCTATCAATTTAT-ACAGAGTTAGTATGTATACATATTTATGTAA
60877012 G
129 G
* * * * *
60877013 GGTTTGCATACTAGATCACATAAGGGTTCGCATACTAAATCACATAAGGTTTTGCTTGAAGGTTC
1 GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
* * * * *
60877078 GTATATCAGCTACAGTTTACCTATCAATTTATACAGATTTTGTGTGTATACATGTTTATGTAAG
66 GTATATCAGCTACAGTTCACCTATCAATTTATACAGAGTTAGTATGTATACATATTTATGTAAG
60877142 GGTTC
1 GGTTC
60877147 TAATGAAATT
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
129 31 0.27
130 83 0.72
131 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (129 bp):
GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
GTATATCAGCTACAGTTCACCTATCAATTTATACAGAGTTAGTATGTATACATATTTATGTAAG
Found at i:60879082 original size:3 final size:3
Alignment explanation
Indices: 60879074--60879099 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60879064 CCACCTATCT
60879074 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
60879100 CTTACCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:60879807 original size:17 final size:17
Alignment explanation
Indices: 60879782--60879831 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
60879772 TTTCGAATGC
*
60879782 CTCTGTTTCTTTCTTTT
1 CTCTTTTTCTTTCTTTT
60879799 CTCTTTTTCTTT-TGTTT
1 CTCTTTTTCTTTCT-TTT
* *
60879816 -TGTTTTTATTTCTTTT
1 CTCTTTTTCTTTCTTTT
60879832 TATTATTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (17 bp):
CTCTTTTTCTTTCTTTT
Found at i:60884304 original size:24 final size:24
Alignment explanation
Indices: 60884277--60884327 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
60884267 CAACATGATA
*
60884277 GTTTGCATACTAATTCACATGAGG
1 GTTTGCATACTAAATCACATGAGG
* *
60884301 GTTTGCATATTAAATCATATGAGG
1 GTTTGCATACTAAATCACATGAGG
60884325 GTT
1 GTT
60884328 CGCACAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (24 bp):
GTTTGCATACTAAATCACATGAGG
Found at i:60884431 original size:16 final size:16
Alignment explanation
Indices: 60884410--60884473 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 16
60884400 ATAATAAATC
* * *
60884410 CATAAGTGTTTGCATT
1 CATAAGGGTTCGCATA
60884426 CATAAGGGTTCGCATA
1 CATAAGGGTTCGCATA
* * *
60884442 CATAATGGTTCTCATG
1 CATAAGGGTTCGCATA
60884458 CATAAGGGTTCGCATA
1 CATAAGGGTTCGCATA
60884474 ACTTATTACC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (16 bp):
CATAAGGGTTCGCATA
Done.