Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 249 of 325
Found at i:78165232 original size:18 final size:18
Alignment explanation
Indices: 78165186--78165234 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
78165176 AAACTCTAGT
*
78165186 TAGTAATACTAGAAACTG
1 TAGTAATACTAGAAACTA
78165204 TAGTTAA-ACTA-AAACTA
1 TAG-TAATACTAGAAACTA
78165221 TAGTAACTACTAGA
1 TAGTAA-TACTAGA
78165235 GATTGCGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 11 0.42
19 4 0.15
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (18 bp):
TAGTAATACTAGAAACTA
Found at i:78166365 original size:21 final size:20
Alignment explanation
Indices: 78166324--78166366 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
78166314 TCTGGGTACT
*
78166324 GGTACTTCACAGCTACATAG
1 GGTACTTCACAGCCACATAG
* *
78166344 GGTAGTTCAGCAGCCACCTAG
1 GGTACTTCA-CAGCCACATAG
78166365 GG
1 GG
78166367 GCCGTAGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.21
Consensus pattern (20 bp):
GGTACTTCACAGCCACATAG
Found at i:78167119 original size:9 final size:9
Alignment explanation
Indices: 78167105--78167130 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
78167095 CAGCTCCGGT
78167105 GGAGCTTAC
1 GGAGCTTAC
78167114 GGAGCTTAC
1 GGAGCTTAC
78167123 GGAGCTTA
1 GGAGCTTA
78167131 AGTCTCAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (9 bp):
GGAGCTTAC
Found at i:78176289 original size:31 final size:31
Alignment explanation
Indices: 78176204--78176296 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
78176194 TAAGGTGTCC
*
78176204 AACACTGATACATAGTACTTGATAAAATATA
1 AACACTGGTACATAGTACTTGATAAAATATA
** * * * *
78176235 AACACCAGCACATGGTGCCTGATACAAA-ATA
1 AACACTGGTACATAGTACTTGATA-AAATATA
* *
78176266 AACACTGGTATATAGTACTTGATATAATATA
1 AACACTGGTACATAGTACTTGATAAAATATA
78176297 GTAATTTGTA
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
30 2 0.04
31 40 0.89
32 3 0.07
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (31 bp):
AACACTGGTACATAGTACTTGATAAAATATA
Found at i:78176313 original size:31 final size:31
Alignment explanation
Indices: 78176278--78176450 Score: 222
Period size: 31 Copynumber: 5.6 Consensus size: 31
78176268 CACTGGTATA
* * * *
78176278 TAGTACTTGATATAATATAGTAATTTGTATG
1 TAGTACCTGATATAATATAGTCATTAGTACG
* **
78176309 TAGTACCTAATATAATATAGTCA-CCGATACG
1 TAGTACCTGATATAATATAGTCATTAG-TACG
* * **
78176340 TAGTACTTGATATAACATAGTCACCAGTACG
1 TAGTACCTGATATAATATAGTCATTAGTACG
78176371 TAGTACCTGATATAATATAGTCATTAGTACG
1 TAGTACCTGATATAATATAGTCATTAGTACG
*
78176402 TAGTACCTAATATAATATAGTCATTAGTACG
1 TAGTACCTGATATAATATAGTCATTAGTACG
78176433 TAGTACCTGATATAATAT
1 TAGTACCTGATATAATAT
78176451 GATCATCGGT
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 1 0.01
31 121 0.98
32 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (31 bp):
TAGTACCTGATATAATATAGTCATTAGTACG
Found at i:78176376 original size:93 final size:93
Alignment explanation
Indices: 78176278--78176447 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
78176268 CACTGGTATA
* * *
78176278 TAGTACTTGATATAATATAGTAATTTGTATGTAGTACCTAATATAATATAGTCACCGA-TACGTA
1 TAGTACCTGATATAATATAGTAATTAGTACGTAGTACCTAATATAATATAGTCA-CGAGTACGTA
*
78176342 GTACTTGATATAACATAGTCACCAGTACG
65 GTACCTGATATAACATAGTCACCAGTACG
* **
78176371 TAGTACCTGATATAATATAGTCATTAGTACGTAGTACCTAATATAATATAGTCATTAGTACGTAG
1 TAGTACCTGATATAATATAGTAATTAGTACGTAGTACCTAATATAATATAGTCACGAGTACGTAG
78176436 TACCTGATATAA
66 TACCTGATATAA
78176448 TATGATCATC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (93 bp):
TAGTACCTGATATAATATAGTAATTAGTACGTAGTACCTAATATAATATAGTCACGAGTACGTAG
TACCTGATATAACATAGTCACCAGTACG
Found at i:78176468 original size:93 final size:93
Alignment explanation
Indices: 78176272--78176469 Score: 256
Period size: 93 Copynumber: 2.1 Consensus size: 93
78176262 AATAAACACT
* * * * *
78176272 GGTATATAGTACTTGATATAATATAGTAATTTGTATGTAGTACCTAATATAATATAGTCACCGAT
1 GGTACATAGTACCTGATATAATATAGTAATTAGTACGTAGTACCTAATATAATATAGTCACAGAT
*
78176337 ACGTAGTACTTGATATAACATAGTCACC
66 ACGTAGTACCTGATATAACATAGTCACC
* * * *
78176365 AGTACGTAGTACCTGATATAATATAGTCATTAGTACGTAGTACCTAATATAATATAGTCATTAG-
1 GGTACATAGTACCTGATATAATATAGTAATTAGTACGTAGTACCTAATATAATATAGTCA-CAGA
* *
78176429 TACGTAGTACCTGATATAATAT-GATCATC
65 TACGTAGTACCTGATATAACATAG-TCACC
78176458 GGTACATAGTAC
1 GGTACATAGTAC
78176470 TTAATACTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
92 1 0.01
93 87 0.98
94 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (93 bp):
GGTACATAGTACCTGATATAATATAGTAATTAGTACGTAGTACCTAATATAATATAGTCACAGAT
ACGTAGTACCTGATATAACATAGTCACC
Found at i:78176475 original size:62 final size:62
Alignment explanation
Indices: 78176272--78176475 Score: 239
Period size: 62 Copynumber: 3.3 Consensus size: 62
78176262 AATAAACACT
* * * * * * *
78176272 GGTATATAGTACTTGATATAATATAGTAATTTGTATGTAGTACCTAATATAATATAGTCACC
1 GGTACATAGTACTTAATATAATATAGTCATTAGTACGTAGTACCTGATATAATATAGTCATC
* * * * ** *
78176334 GATACGTAGTACTTGATATAACATAGTCACCAGTACGTAGTACCTGATATAATATAGTCATT
1 GGTACATAGTACTTAATATAATATAGTCATTAGTACGTAGTACCTGATATAATATAGTCATC
* * *
78176396 AGTACGTAGTACCTAATATAATATAGTCATTAGTACGTAGTACCTGATATAATAT-GATCATC
1 GGTACATAGTACTTAATATAATATAGTCATTAGTACGTAGTACCTGATATAATATAG-TCATC
78176458 GGTACATAGTACTTAATA
1 GGTACATAGTACTTAATA
78176476 CTTTTAAATC
Statistics
Matches: 118, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
61 1 0.01
62 117 0.99
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (62 bp):
GGTACATAGTACTTAATATAATATAGTCATTAGTACGTAGTACCTGATATAATATAGTCATC
Found at i:78183399 original size:46 final size:44
Alignment explanation
Indices: 78183315--78183406 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 44
78183305 ATATCTATTC
*
78183315 CATTCAACCAAACACAATAATACTATTACAGTTCTATTTCATTA
1 CATTCAACCAAACACAATAATACTATTACAGTCCTATTTCATTA
*
78183359 CATTCAACCAAACA-ATTGAATTACTGATTACAGTCCTATTTCATTA
1 CATTCAACCAAACACAAT-AA-TACT-ATTACAGTCCTATTTCATTA
78183405 CA
1 CA
78183407 GCTCTATTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 2 0.05
44 16 0.37
45 4 0.09
46 21 0.49
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (44 bp):
CATTCAACCAAACACAATAATACTATTACAGTCCTATTTCATTA
Found at i:78183406 original size:16 final size:16
Alignment explanation
Indices: 78183385--78183436 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
78183375 TGAATTACTG
78183385 ATTACAGTCCTATTTC
1 ATTACAGTCCTATTTC
*
78183401 ATTACAG-CTCTATTCC
1 ATTACAGTC-CTATTTC
*
78183417 ATTACAGTCTTATTTC
1 ATTACAGTCCTATTTC
78183433 ATTA
1 ATTA
78183437 AAGTGAACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTACAGTCCTATTTC
Found at i:78185340 original size:3 final size:3
Alignment explanation
Indices: 78185332--78185382 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
78185322 TAATTAATTA
* * *
78185332 ATT ATT ATT ATT ATT ATT GTT TTT GTAT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
78185378 -TT ATT
1 ATT ATT
78185383 CTTTCTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:78188669 original size:16 final size:16
Alignment explanation
Indices: 78188648--78188678 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78188638 TCAATTAATC
*
78188648 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
78188664 TAATTAAACTAAAAA
1 TAATTAAACTAAAAA
78188679 CCATCCAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:78190323 original size:57 final size:58
Alignment explanation
Indices: 78190251--78190363 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 58
78190241 TTTTCAAGTT
*
78190251 ATTTTCATTTCGGAGAAAACCACATTCATTTCCAAATGATTT-C-ATTTCTCCATTTTC
1 ATTTTCATTTCGGAGAAAACCACAATCATTTCCAAATG-TTTACTATTTCTCCATTTTC
* **
78190308 ATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTTTACTATTTCTCCATTT
1 ATTTTCATTTCGGAGAAAACCACAATCATTTCCAAATGTTTACTATTTCTCCATTT
78190364 CACCATTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 3 0.06
57 35 0.70
58 12 0.24
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (58 bp):
ATTTTCATTTCGGAGAAAACCACAATCATTTCCAAATGTTTACTATTTCTCCATTTTC
Found at i:78199613 original size:27 final size:27
Alignment explanation
Indices: 78199583--78199666 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
78199573 AACTGTTTTT
* *
78199583 CCCTTAT-GTGATAAAATGGCCGAAGTA
1 CCCTTATAG-GATAAAATGACCGAAATA
*
78199610 CCCTTATAGGGTAAAATGACCGAAATA
1 CCCTTATAGGATAAAATGACCGAAATA
* * *
78199637 CCCCTATAAGG-TAAAATGACTGTAATA
1 CCCTTAT-AGGATAAAATGACCGAAATA
78199664 CCC
1 CCC
78199667 CTGTAAGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 45 0.92
28 4 0.08
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (27 bp):
CCCTTATAGGATAAAATGACCGAAATA
Found at i:78199667 original size:27 final size:27
Alignment explanation
Indices: 78199594--78199686 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
78199584 CCTTATGTGA
* * * * *
78199594 TAAAATGGCCGAAGTACCCTTATAGGG
1 TAAAATGACTGAAATACCCCTATAAGG
*
78199621 TAAAATGACCGAAATACCCCTATAAGG
1 TAAAATGACTGAAATACCCCTATAAGG
* * *
78199648 TAAAATGACTGTAATACCCCTGTAAGA
1 TAAAATGACTGAAATACCCCTATAAGG
*
78199675 TAAACTGACTGA
1 TAAAATGACTGA
78199687 TTTGCCTTAC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCCTATAAGG
Found at i:78206665 original size:3 final size:3
Alignment explanation
Indices: 78206657--78206682 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
78206647 ACTTAGTTGT
78206657 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
78206683 GTCGACACCA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:78207876 original size:2 final size:2
Alignment explanation
Indices: 78207869--78207901 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
78207859 AGTATTCTTA
78207869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78207902 GATAAAGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78207996 original size:25 final size:25
Alignment explanation
Indices: 78207932--78207996 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
78207922 TAATAAATGG
*
78207932 ATAAATAAATAATATGATAACAATA
1 ATAAATAAATAAAATGATAACAATA
* * *
78207957 ATAAAGGAAAGAAAATGATGA-AATA
1 ATAAA-TAAATAAAATGATAACAATA
78207982 ATAAATAAAATAAAA
1 ATAAAT-AAATAAAA
78207997 CAGAATAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 21 0.66
26 11 0.34
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.22
Consensus pattern (25 bp):
ATAAATAAATAAAATGATAACAATA
Found at i:78211679 original size:17 final size:17
Alignment explanation
Indices: 78211657--78211691 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
78211647 GAATCTACGT
78211657 GACATTCATATGTAAAA
1 GACATTCATATGTAAAA
78211674 GACATTCATATGTAAAA
1 GACATTCATATGTAAAA
78211691 G
1 G
78211692 TATTTTTAAA
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:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (17 bp):
GACATTCATATGTAAAA
Found at i:78212041 original size:31 final size:31
Alignment explanation
Indices: 78212006--78212082 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
78211996 AAAAATTGTT
* *
78212006 ATTTTAGTTACTTTAGTTAGATAAGTTATCA
1 ATTTTAGTCACTCTAGTTAGATAAGTTATCA
*
78212037 ATTTTAGTCACTCTCGTTAGATAAGTTATCA
1 ATTTTAGTCACTCTAGTTAGATAAGTTATCA
* * *
78212068 GTTCTAATCACTCTA
1 ATTTTAGTCACTCTA
78212083 CCATTAAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (31 bp):
ATTTTAGTCACTCTAGTTAGATAAGTTATCA
Found at i:78218432 original size:5 final size:5
Alignment explanation
Indices: 78218422--78218451 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
78218412 TTTCTTTGCC
78218422 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
78218452 CTTCAGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:78222375 original size:22 final size:22
Alignment explanation
Indices: 78222350--78222394 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
78222340 TTTAATAAAA
78222350 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
78222372 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
78222394 A
1 A
78222395 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:78224880 original size:22 final size:22
Alignment explanation
Indices: 78224827--78224880 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
78224817 TTTAATAAAA
*
78224827 AAAATATCTACAAAATATTCCT
1 AAAATATTTACAAAATATTCCT
*
78224849 AAAATATTTACAGAATATTCCT
1 AAAATATTTACAAAATATTCCT
* *
78224871 ACAATTTTTA
1 AAAATATTTA
78224881 TAGTCTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAATATTTACAAAATATTCCT
Found at i:78233344 original size:2 final size:2
Alignment explanation
Indices: 78233337--78233376 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
78233327 TTAAACTTTA
* * *
78233337 AT AT AT AT AC AC AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78233377 TGAATTGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:78233688 original size:42 final size:42
Alignment explanation
Indices: 78233589--78233738 Score: 160
Period size: 42 Copynumber: 3.6 Consensus size: 42
78233579 TCATGTTTAC
* * * * * *
78233589 TTTCCGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAGT
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACCCTTAT-AGG
* *
78233632 TTTC-GTTTAACTCTTTTGAGCTTCTGTTTAACCCTTATAGG
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATAGG
* * * *
78233673 TTTCTGTTCAGCTCTTATGAGCTTTTGCTCAACCCTTAT-GTG
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATAG-G
78233715 TTTCTGTTTAGCTCTTATGAGCTT
1 TTTCTGTTTAGCTCTTATGAGCTT
78233739 TTATTCAGCG
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
41 7 0.08
42 80 0.88
43 4 0.04
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (42 bp):
TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACCCTTATAGG
Found at i:78233731 original size:21 final size:21
Alignment explanation
Indices: 78233611--78233735 Score: 103
Period size: 21 Copynumber: 6.0 Consensus size: 21
78233601 TCTCACGAGC
*
78233611 TTCTGTTTAACTCATATGAGT
1 TTCTGTTTAACTCTTATGAGT
* *
78233632 TT-TCGTTTAACTCTTTTGAGC
1 TTCT-GTTTAACTCTTATGAGT
*
78233653 TTCTGTTTAACCCTTAT-AGGT
1 TTCTGTTTAACTCTTATGA-GT
* *
78233674 TTCTGTTCAGCTCTTATGAGCT
1 TTCTGTTTAACTCTTATGAG-T
* * * *
78233696 TT-TGCTCAACCCTTATGTGT
1 TTCTGTTTAACTCTTATGAGT
*
78233716 TTCTGTTTAGCTCTTATGAG
1 TTCTGTTTAACTCTTATGAG
78233736 CTTTTATTCA
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
20 5 0.06
21 70 0.88
22 5 0.06
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (21 bp):
TTCTGTTTAACTCTTATGAGT
Found at i:78241228 original size:19 final size:19
Alignment explanation
Indices: 78241187--78241229 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
78241177 TATTAAATTT
* *
78241187 AATATCTGTGTTTTATTAT
1 AATATATGTGTTTTATTAA
78241206 AATATATGTGTTTTCA-TAA
1 AATATATGTGTTTT-ATTAA
78241225 AATAT
1 AATAT
78241230 TCAATGTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (19 bp):
AATATATGTGTTTTATTAA
Found at i:78244800 original size:39 final size:39
Alignment explanation
Indices: 78244757--78244897 Score: 210
Period size: 39 Copynumber: 3.6 Consensus size: 39
78244747 CATATTCACT
* * * * *
78244757 TTTAAACATATATTACATTACACATATAATCACATAAAA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
78244796 TTTAAGCATATATCACAATACTCATATAATTACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
78244835 TTTAAGCATATATCACAATACTCATGTAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
78244874 TTCAAGCATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
78244898 AAAACATGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:78246720 original size:54 final size:54
Alignment explanation
Indices: 78246586--78246720 Score: 225
Period size: 54 Copynumber: 2.5 Consensus size: 54
78246576 GACCCTAAGC
* * *
78246586 TACACGGGCACAATGAGTTACACGGTCTATGCATATAGTCGTGTGACCTTATAT
1 TACACGGGCACAATGAGTTACACGGTTTATCCATATAGTCGTGTGACATTATAT
78246640 TACACGGGCACAATGAGTTACACGGTTTATCCATATAGTCGTGTGACATTATAT
1 TACACGGGCACAATGAGTTACACGGTTTATCCATATAGTCGTGTGACATTATAT
* *
78246694 TACACGGGCACAGTTAGTTACACGGTT
1 TACACGGGCACAATGAGTTACACGGTT
78246721 AGCGTATATG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (54 bp):
TACACGGGCACAATGAGTTACACGGTTTATCCATATAGTCGTGTGACATTATAT
Found at i:78248982 original size:19 final size:20
Alignment explanation
Indices: 78248958--78248995 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
78248948 GGTACCACCA
78248958 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
78248977 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
78248996 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:78249334 original size:93 final size:93
Alignment explanation
Indices: 78249224--78249394 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
78249214 GCCCCTAAGT
* *
78249224 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
78249289 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
78249317 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
78249382 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78249395 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:78249391 original size:46 final size:46
Alignment explanation
Indices: 78249219--78249391 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
78249209 AACCCGCCCC
* * * *
78249219 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
78249265 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
78249313 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
78249358 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78249392 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:78249831 original size:30 final size:30
Alignment explanation
Indices: 78249797--78249856 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
78249787 ATTTAATACG
78249797 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
78249827 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
78249857 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:78256533 original size:19 final size:20
Alignment explanation
Indices: 78256509--78256546 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
78256499 GGTACCACCA
78256509 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
78256528 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
78256547 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:78256885 original size:93 final size:93
Alignment explanation
Indices: 78256775--78256945 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
78256765 GCCCCTAAGT
* *
78256775 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
78256840 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
78256868 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
78256933 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78256946 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:78256942 original size:46 final size:46
Alignment explanation
Indices: 78256770--78256942 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
78256760 AACCCGCCCC
* * * *
78256770 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
78256816 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
78256864 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
78256909 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78256943 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:78257401 original size:30 final size:30
Alignment explanation
Indices: 78257367--78257426 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
78257357 ATTTAATACG
78257367 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
78257397 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
78257427 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:78258740 original size:60 final size:59
Alignment explanation
Indices: 78258661--78258797 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
78258651 AACTATGTTA
* *
78258661 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGAATGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGAATAATACTG
* * * * *
78258721 ATATGGGCTAGGCCTAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGAATAATACTG
78258781 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
78258798 GTTAACACTG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.02
60 50 0.77
61 14 0.22
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGAATAATACTG
Found at i:78261871 original size:22 final size:21
Alignment explanation
Indices: 78261846--78261896 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
78261836 AAATTTATAT
* *
78261846 TTTTCTTTTCTTTTTTTTTTCA
1 TTTTCTTTTCTTCTATTTTT-A
*
78261868 TTTTCTCTTCTTCTATTTTTA
1 TTTTCTTTTCTTCTATTTTTA
78261889 TTCTTCTT
1 TT-TTCTT
78261897 ATTTTTCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCTTTTCTTCTATTTTTA
Found at i:78261909 original size:17 final size:17
Alignment explanation
Indices: 78261843--78261909 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
78261833 TGCAAATTTA
78261843 TATTTTTCTTTTCTT-T
1 TATTTTTCTTTTCTTCT
*
78261859 TTTTTTTCATTTTCTCTTCT
1 TATTTTTC--TTT-TCTTCT
* *
78261879 TCTATTTT-TATTCTTCT
1 TAT-TTTTCTTTTCTTCT
78261896 TATTTTTCTTTTCT
1 TATTTTTCTTTTCT
78261910 CCCCTATAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 11 0.28
17 13 0.32
18 5 0.12
19 4 0.10
20 3 0.08
21 4 0.10
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTTTTCTTTTCTTCT
Found at i:78263427 original size:60 final size:60
Alignment explanation
Indices: 78263349--78263484 Score: 168
Period size: 60 Copynumber: 2.2 Consensus size: 60
78263339 ACTATGTTAG
* * *
78263349 TATGGGCAAGGCCTAATATA-TCTCA-ACTTGTAATAGGGCTACAGCCCAGATTGATACTGA
1 TATGGGCTAGGCCCAATATACTCTCATAC-TGTAA-AGGGCTACAGCCCAGATTAATACTGA
* ** *
78263409 TATGGGCTAGGCCCAATATACTCTGATACTGTAAAGGGCTATGGCCCAGATTAATATTGA
1 TATGGGCTAGGCCCAATATACTCTCATACTGTAAAGGGCTACAGCCCAGATTAATACTGA
78263469 TATGGGCTAAGGCCCA
1 TATGGGCT-AGGCCCA
78263485 GTTAACACTG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
60 48 0.73
61 16 0.24
62 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (60 bp):
TATGGGCTAGGCCCAATATACTCTCATACTGTAAAGGGCTACAGCCCAGATTAATACTGA
Found at i:78268819 original size:41 final size:40
Alignment explanation
Indices: 78268757--78268901 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
78268747 GTAAATCGAG
* *
78268757 CATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCTAA
1 CATTAGCGGCGCTTTTTAAAAAACACCACTATAGGTCTAA
* *
78268797 CATTAGCGGCGCTTTTTAAAAAACACCACTATAAGTCTAC
1 CATTAGCGGCGCTTTTTAAAAAACACCACTATAGGTCTAA
* * * * *
78268837 CATTAGCGGCGATTCTTAAAAAAACACCACTATAGATCGAG
1 CATTAGCGGCGCTT-TTTAAAAAACACCACTATAGGTCTAA
*
78268878 CATTAGCGGCGCTTTATAAAAAAC
1 CATTAGCGGCGCTTTTTAAAAAAC
78268902 GACGTAAAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 57 0.63
41 34 0.37
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTAAAAAACACCACTATAGGTCTAA
Found at i:78269338 original size:7 final size:7
Alignment explanation
Indices: 78269328--78269439 Score: 66
Period size: 7 Copynumber: 15.7 Consensus size: 7
78269318 ACAGTTTAGT
78269328 GTTTATG
1 GTTTATG
*
78269335 GTTTAGG
1 GTTTATG
*
78269342 GTATATG
1 GTTTATG
* *
78269349 ATTTAGG
1 GTTTATG
*
78269356 GTTTAAG
1 GTTTATG
*
78269363 GTTTAGG
1 GTTTATG
78269370 AGTTACTAT-
1 -GTT--TATG
**
78269379 -TTTAAA
1 GTTTATG
78269385 GTTTATG
1 GTTTATG
*
78269392 GATTATGG
1 GTTTAT-G
*
78269400 GTATATG
1 GTTTATG
*
78269407 GATTATG
1 GTTTATG
78269414 GTTTATG
1 GTTTATG
78269421 GTTTATG
1 GTTTATG
*
78269428 ATTTATG
1 GTTTATG
78269435 GTTTA
1 GTTTA
78269440 AAGGTTAGGG
Statistics
Matches: 78, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
5 2 0.03
7 66 0.85
8 8 0.10
10 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.48
Consensus pattern (7 bp):
GTTTATG
Found at i:78269340 original size:14 final size:14
Alignment explanation
Indices: 78269321--78269439 Score: 80
Period size: 14 Copynumber: 8.4 Consensus size: 14
78269311 TATCATTACA
*
78269321 GTTTAGTGTTTATG
1 GTTTAGGGTTTATG
*
78269335 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
78269349 ATTTAGGGTTTAAG
1 GTTTAGGGTTTATG
78269363 GTTTAGGAGTTACTAT-
1 GTTTAGG-GTT--TATG
**
78269379 -TTTAAAGTTTATG
1 GTTTAGGGTTTATG
* *
78269392 GATTATGGGTATATG
1 GTTTA-GGGTTTATG
* *
78269407 GATTATGGTTTATG
1 GTTTAGGGTTTATG
* *
78269421 GTTTATGATTTATG
1 GTTTAGGGTTTATG
78269435 GTTTA
1 GTTTA
78269440 AAGGTTAGGG
Statistics
Matches: 82, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
12 3 0.04
14 59 0.72
15 18 0.22
17 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.49
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:78269451 original size:14 final size:14
Alignment explanation
Indices: 78269434--78269496 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
78269424 TATGATTTAT
78269434 GGTTTAAAGGTTAG
1 GGTTTAAAGGTTAG
* *
78269448 GGTTTAAAGTTTAA
1 GGTTTAAAGGTTAG
78269462 GGTTTAAAGGTTAG
1 GGTTTAAAGGTTAG
* *
78269476 GGGTTAAGGGTTAAG
1 GGTTTAAAGGTT-AG
78269491 GGTTTA
1 GGTTTA
78269497 GGCCTAAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 34 0.83
15 7 0.17
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (14 bp):
GGTTTAAAGGTTAG
Found at i:78269451 original size:28 final size:28
Alignment explanation
Indices: 78269429--78269496 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
78269419 TGGTTTATGA
*
78269429 TTTATGGTTTAAAGGTTAGGGTTTAAAG
1 TTTAAGGTTTAAAGGTTAGGGTTTAAAG
* *
78269457 TTTAAGGTTTAAAGGTTAGGGGTTAAGG
1 TTTAAGGTTTAAAGGTTAGGGTTTAAAG
*
78269485 GTTAAGGGTTTA
1 TTTAA-GGTTTA
78269497 GGCCTAAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (28 bp):
TTTAAGGTTTAAAGGTTAGGGTTTAAAG
Found at i:78270620 original size:14 final size:14
Alignment explanation
Indices: 78270601--78270630 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
78270591 ATTTCTTGCT
78270601 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
78270615 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
78270629 TC
1 TC
78270631 CCTTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (14 bp):
TCTCTAAATCTCCA
Found at i:78274240 original size:41 final size:41
Alignment explanation
Indices: 78274190--78274268 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
78274180 GGGATGGTGG
* ** *
78274190 TGACTTTTAGCGGTGTTTTTAAGGAAAGCGTCGCTAAACAA
1 TGACCTTTAGCGGCATTTTTAAGGAAAGCGCCGCTAAACAA
* **
78274231 TGACCTTTAGTGGCATTTTTGGGGAAAGCGCCGCTAAA
1 TGACCTTTAGCGGCATTTTTAAGGAAAGCGCCGCTAAA
78274269 GGTCATGTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (41 bp):
TGACCTTTAGCGGCATTTTTAAGGAAAGCGCCGCTAAACAA
Found at i:78274297 original size:43 final size:43
Alignment explanation
Indices: 78274235--78274334 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
78274225 AAACAATGAC
* * * * *
78274235 CTTTAGTGGCATTTTTGGGGAAAGCGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGAGCCGCTAAAGGTCACGTT
78274278 CTTTAGCGGCGTTTGTGGGGAAAGAGCCGCTAAAGGTCACGTT
1 CTTTAGCGGCGTTTGTGGGGAAAGAGCCGCTAAAGGTCACGTT
*
78274321 CTTTAGCGGTGTTT
1 CTTTAGCGGCGTTT
78274335 TTTTACATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGGAAAGAGCCGCTAAAGGTCACGTT
Found at i:78275283 original size:5 final size:5
Alignment explanation
Indices: 78275273--78275304 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
78275263 AAGCATGTGA
78275273 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
78275305 GAACACAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:78275298 original size:9 final size:9
Alignment explanation
Indices: 78275274--78275304 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
78275264 AGCATGTGAA
78275274 AAATAAAAT
1 AAATAAAAT
78275283 AAAATAAAAT
1 -AAATAAAAT
78275293 AAATAAAAT
1 AAATAAAAT
78275302 AAA
1 AAA
78275305 GAACACAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:78279741 original size:5 final size:5
Alignment explanation
Indices: 78279731--78279762 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
78279721 CAATTTGTGA
78279731 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
78279763 GAACACAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:78279756 original size:9 final size:9
Alignment explanation
Indices: 78279732--78279762 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
78279722 AATTTGTGAA
78279732 AAATAAAAT
1 AAATAAAAT
78279741 AAAATAAAAT
1 -AAATAAAAT
78279751 AAATAAAAT
1 AAATAAAAT
78279760 AAA
1 AAA
78279763 GAACACAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:78281548 original size:5 final size:5
Alignment explanation
Indices: 78281524--78281564 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
78281514 TATTTTACTA
78281524 ATTTT -TTTT ATTTT CA--TT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT ATT
78281565 CAGTTACCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 1 0.03
4 6 0.19
5 24 0.75
6 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:78289588 original size:21 final size:21
Alignment explanation
Indices: 78289564--78289623 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
78289554 CTTGAAACAG
78289564 GGCAACACGCCCATGTGGAAA
1 GGCAACACGCCCATGTGGAAA
* * *
78289585 GGCAACATGCCCGTGTGGAAG
1 GGCAACACGCCCATGTGGAAA
78289606 GGCAACACGCCCATGTGG
1 GGCAACACGCCCATGTGG
78289624 TCATTATAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.28, G:0.33, T:0.12
Consensus pattern (21 bp):
GGCAACACGCCCATGTGGAAA
Found at i:78290922 original size:41 final size:41
Alignment explanation
Indices: 78290861--78290944 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
78290851 CCTAATGTTG
*
78290861 TCGCATTTGTTCATACTGTGGACTACTCTTATTTCGCACTA
1 TCGCATTTGTTCATAATGTGGACTACTCTTATTTCGCACTA
78290902 TCGCATTTGTTCATAATGTGGACTACTCTTATTTCGCACTA
1 TCGCATTTGTTCATAATGTGGACTACTCTTATTTCGCACTA
78290943 TC
1 TC
78290945 TATACTTTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (41 bp):
TCGCATTTGTTCATAATGTGGACTACTCTTATTTCGCACTA
Found at i:78293468 original size:2 final size:2
Alignment explanation
Indices: 78293461--78293486 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78293451 AAACCAAATC
78293461 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
78293487 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:78293919 original size:46 final size:47
Alignment explanation
Indices: 78293836--78293985 Score: 146
Period size: 46 Copynumber: 3.2 Consensus size: 47
78293826 CCCGTTTGGG
* *
78293836 TAAACCTACACAAATAATGAATCATAGTTTCTAGTCACACG-TAAGGGT
1 TAAACCTACACAAATAA-GAATAATAGTGTCTAGTCACACGTTAA-GGT
* * *
78293884 TGAACCTACACGAATAA-AATAATAGTGTCTAGTCACTCGTTAAGGT
1 TAAACCTACACAAATAAGAATAATAGTGTCTAGTCACACGTTAAGGT
* * * * *
78293930 TAAACCTACAAAAAT-CGGATAATAGTG-CCAGGTCACCCGTTAAGGT
1 TAAACCTACACAAATAAGAATAATAGTGTCTA-GTCACACGTTAAGGT
*
78293976 TGAACCTACA
1 TAAACCTACA
78293986 TAACGAATAG
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
45 2 0.02
46 66 0.77
47 3 0.03
48 15 0.17
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (47 bp):
TAAACCTACACAAATAAGAATAATAGTGTCTAGTCACACGTTAAGGT
Found at i:78298714 original size:68 final size:67
Alignment explanation
Indices: 78298642--78298791 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
78298632 CATCATGTGT
* * * *
78298642 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
78298704 ATGTAG
62 ATGTAG
** * *
78298710 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
78298775 AG
66 AG
78298777 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
78298792 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:78298747 original size:64 final size:64
Alignment explanation
Indices: 78298666--78298849 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
78298656 AGACATTATG
* *
78298666 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
78298730 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
78298795 AA
63 AA
* * * *
78298797 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
78298850 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:78301205 original size:21 final size:21
Alignment explanation
Indices: 78301181--78301224 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
78301171 ATACCTCATA
78301181 AACCCAAATCTATAGAAATTT
1 AACCCAAATCTATAGAAATTT
78301202 AACCCAAATCTATAGAAATTT
1 AACCCAAATCTATAGAAATTT
78301223 AA
1 AA
78301225 TGTTACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (21 bp):
AACCCAAATCTATAGAAATTT
Found at i:78304206 original size:21 final size:20
Alignment explanation
Indices: 78304161--78304206 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
78304151 TTGTTGGAAT
78304161 GGTT-AATTTAATCGATTTA
1 GGTTGAATTTAATCGATTTA
*
78304180 GCTTGAATTTAATTCG-TGTTA
1 GGTTGAATTTAA-TCGAT-TTA
78304201 GGTTGA
1 GGTTGA
78304207 TTGCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 8 0.36
21 11 0.50
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCGATTTA
Found at i:78305572 original size:24 final size:24
Alignment explanation
Indices: 78305545--78305591 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
78305535 GGGAAGAGGA
78305545 ATTTTGGAAAAAATC-AAATAAATT
1 ATTTT-GAAAAAATCAAAATAAATT
* *
78305569 ATTTTGATAATATCAAAATAAAT
1 ATTTTGAAAAAATCAAAATAAAT
78305592 CCCACATCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.36
Consensus pattern (24 bp):
ATTTTGAAAAAATCAAAATAAATT
Found at i:78306413 original size:30 final size:31
Alignment explanation
Indices: 78306377--78306453 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 31
78306367 TTAACTCAAC
*
78306377 AACTATTTTTTTTTTG-TGTTCTTT-AAAA-AA
1 AACTA-TTTTTTTTTGCTATT-TTTGAAAACAA
*
78306407 AACTATTTTTTTGTGCTATTTTTGAAAACAA
1 AACTATTTTTTTTTGCTATTTTTGAAAACAA
78306438 AACTAGTTTTTTTTTG
1 AACTA-TTTTTTTTTG
78306454 GGGCTAAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 12 0.30
30 12 0.30
31 7 0.17
32 9 0.22
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.55
Consensus pattern (31 bp):
AACTATTTTTTTTTGCTATTTTTGAAAACAA
Found at i:78306440 original size:31 final size:28
Alignment explanation
Indices: 78306385--78306450 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 28
78306375 ACAACTATTT
78306385 TTTTTTTGTGTTCTTTAAAAAAAACTA-
1 TTTTTTTGTGTTCTTTAAAAAAAACTAG
*
78306412 TTTTTTTGTGCTATTTTTGAAAACAAAACTAG
1 TTTTTTTGTG-T-TCTTT-AAAA-AAAACTAG
78306444 TTTTTTT
1 TTTTTTT
78306451 TTGGGGCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 10 0.30
28 1 0.03
29 4 0.12
30 4 0.12
31 7 0.21
32 7 0.21
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.55
Consensus pattern (28 bp):
TTTTTTTGTGTTCTTTAAAAAAAACTAG
Found at i:78307183 original size:22 final size:22
Alignment explanation
Indices: 78307097--78307177 Score: 135
Period size: 22 Copynumber: 3.7 Consensus size: 22
78307087 AAAACATAGG
*
78307097 TACTCTTTGTTAAGTACTTCGA
1 TACTCTTTGTTCAGTACTTCGA
*
78307119 TACTCTCTGTTCAGTACTTCGA
1 TACTCTTTGTTCAGTACTTCGA
*
78307141 TACTCTTTGTTCAGTACTTTGA
1 TACTCTTTGTTCAGTACTTCGA
78307163 TACTCTTTGTTCAGT
1 TACTCTTTGTTCAGT
78307178 TCTTTGGGAC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.47
Consensus pattern (22 bp):
TACTCTTTGTTCAGTACTTCGA
Found at i:78307211 original size:22 final size:22
Alignment explanation
Indices: 78307097--78307214 Score: 128
Period size: 22 Copynumber: 5.4 Consensus size: 22
78307087 AAAACATAGG
* * *
78307097 TACTCTTTGTTAAGTACTTCGA
1 TACTCTCTGTTCAGTACTTTGA
*
78307119 TACTCTCTGTTCAGTACTTCGA
1 TACTCTCTGTTCAGTACTTTGA
*
78307141 TACTCTTTGTTCAGTACTTTGA
1 TACTCTCTGTTCAGTACTTTGA
* * *
78307163 TACTCTTTGTTCAGTTCTTTGG
1 TACTCTCTGTTCAGTACTTTGA
* * * *
78307185 GACTCTCTGTTCAATACTATGG
1 TACTCTCTGTTCAGTACTTTGA
78307207 TACTCTCT
1 TACTCTCT
78307215 ATTTAGCATT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 84 1.00
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (22 bp):
TACTCTCTGTTCAGTACTTTGA
Found at i:78308482 original size:29 final size:28
Alignment explanation
Indices: 78308423--78308487 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
78308413 TAGGAATTAA
* * **
78308423 AATAGGATAAAATAAATAATTAGTTAAT
1 AATAGTATAAAATAAAAAATTAAATAAT
78308451 AATAGTATAAAATAATAAAATTAAATAAT
1 AATAGTATAAAATAA-AAAATTAAATAAT
*
78308480 AATGGTAT
1 AATAGTAT
78308488 TAATAATCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (28 bp):
AATAGTATAAAATAAAAAATTAAATAAT
Found at i:78309871 original size:2 final size:2
Alignment explanation
Indices: 78309826--78309851 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78309816 GTTATACATA
78309826 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
78309852 GAGTGGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78309924 original size:2 final size:2
Alignment explanation
Indices: 78309917--78309979 Score: 110
Period size: 2 Copynumber: 31.5 Consensus size: 2
78309907 GGCTTTATTT
78309917 TA TA TA TA TA TA -A TA TCA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
78309959 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
78309980 GCATGGTTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.95
3 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:78312834 original size:42 final size:42
Alignment explanation
Indices: 78312693--78313056 Score: 630
Period size: 42 Copynumber: 8.7 Consensus size: 42
78312683 TTCCCACAAA
78312693 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG-AAAG
*
78312736 CGCCGCTACAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG-AAAG
78312779 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAG
78312821 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTT-TGGGAAAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG-AAAG
*
78312863 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAG
*
78312905 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAG
*
78312947 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGAAAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAG
78312989 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-GGAAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAG
78313030 CGCCGCTAAA---CAAGGCTTTTAGCGGCG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
78313057 CTTTTTTACA
Statistics
Matches: 315, Mismatches: 4, Indels: 9
0.96 0.01 0.03
Matches are distributed among these distances:
38 17 0.05
41 19 0.06
42 197 0.63
43 82 0.26
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (42 bp):
CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAG
Found at i:78313163 original size:31 final size:31
Alignment explanation
Indices: 78313128--78313208 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
78313118 CTTCCTGCAT
* *
78313128 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
78313159 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
78313190 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
78313209 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:78313478 original size:21 final size:21
Alignment explanation
Indices: 78313454--78313499 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
78313444 GCTCGTGCCT
*
78313454 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
78313475 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
78313496 CTGC
1 CTGC
78313500 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:78319160 original size:9 final size:9
Alignment explanation
Indices: 78319146--78319371 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
78319136 TATTTAAGTA
78319146 TTATGTAAG
1 TTATGTAAG
*
78319155 TTATGTAAT
1 TTATGTAAG
*
78319164 TTATGATATG
1 TTATG-TAAG
* * *
78319174 ATATAT-AT
1 TTATGTAAG
*
78319182 TTATGTAAA
1 TTATGTAAG
* *
78319191 TTATAT-AT
1 TTATGTAAG
*
78319199 TTATCTAAG
1 TTATGTAAG
*
78319208 TTATATAAG
1 TTATGTAAG
78319217 TTATGTAAG
1 TTATGTAAG
*
78319226 TTATGTAAA
1 TTATGTAAG
*
78319235 TTATGATATAAAA
1 TTATG---T-AAG
*
78319248 TATATTTAAG
1 T-TATGTAAG
78319258 TATTATGTAAG
1 --TTATGTAAG
78319269 TTATGTAAG
1 TTATGTAAG
* *
78319278 TTATAT-AT
1 TTATGTAAG
*
78319286 TTATCTAAG
1 TTATGTAAG
*
78319295 TTATATAAG
1 TTATGTAAG
*
78319304 TTATATAAG
1 TTATGTAAG
*
78319313 TTATGTATG
1 TTATGTAAG
*
78319322 TTATATAAG
1 TTATGTAAG
78319331 TTATGTAAG
1 TTATGTAAG
* *
78319340 TTATATATG
1 TTATGTAAG
*
78319349 TTATATAAG
1 TTATGTAAG
*
78319358 TTATGTAAA
1 TTATGTAAG
78319367 TTATG
1 TTATG
78319372 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:78319225 original size:18 final size:18
Alignment explanation
Indices: 78319146--78319371 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
78319136 TATTTAAGTA
* *
78319146 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
78319164 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
78319182 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
78319199 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
78319217 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
78319235 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
78319258 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
78319278 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
78319295 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
78319313 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
78319331 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
78319349 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
78319367 TTATG
1 TTATG
78319372 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:78319238 original size:27 final size:27
Alignment explanation
Indices: 78319199--78319371 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
78319189 AATTATATAT
*
78319199 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
78319226 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
78319258 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
78319286 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
78319313 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
78319340 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
78319367 TTATG
1 TTATG
78319372 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:78319256 original size:114 final size:114
Alignment explanation
Indices: 78319122--78319343 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
78319112 ACTAGTTATG
* * * *
78319122 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
78319186 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
78319236 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
78319301 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
78319344 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:78319496 original size:15 final size:15
Alignment explanation
Indices: 78319476--78319531 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
78319466 AAGTAGCGGG
78319476 ATTAAATAATATTTA
1 ATTAAATAATATTTA
78319491 ATTAAATAATATTT-
1 ATTAAATAATATTTA
78319505 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
78319520 ATTAAATAATAT
1 ATTAAATAATAT
78319532 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:78319736 original size:24 final size:24
Alignment explanation
Indices: 78319708--78319775 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
78319698 ACTTAAATGG
78319708 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
78319732 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
78319756 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
78319776 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:78321086 original size:371 final size:371
Alignment explanation
Indices: 78319863--78321143 Score: 2530
Period size: 370 Copynumber: 3.5 Consensus size: 371
78319853 AATTGAAACA
78319863 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
78319928 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
78319993 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
78320058 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
196 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
78320123 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
261 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
78320188 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCAAGTCTT
326 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCAAGTCTT
78320234 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
78320299 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
78320364 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTT-ATAAAAAGTAGTTATAACTTTTAAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
78320428 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
196 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
78320493 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
261 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
78320558 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCAAGTCTT
326 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCAAGTCTT
78320604 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
78320669 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
78320734 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAA-TAGTTATAACTTTTAAA
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
78320798 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
196 GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
78320863 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
261 AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
78320928 TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTT
326 TAAATATTCAATAGTAAATGAGCTCGATAGAAC-TTTTTCAAGTCTT
78320975 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
1 TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
78321040 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
66 CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
*
78321105 AATAAGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTT
131 AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTT
78321144 AATGGACAAG
Statistics
Matches: 907, Mismatches: 1, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
370 550 0.61
371 357 0.39
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (371 bp):
TTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTG
CAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAA
AATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAA
GAAATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATAT
AATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATA
TAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTCAAGTCTT
Found at i:78324652 original size:635 final size:635
Alignment explanation
Indices: 78321581--78324755 Score: 6072
Period size: 634 Copynumber: 5.0 Consensus size: 635
78321571 GGTGCTCGAT
78321581 AGTACCTAGAACAGATGTAAGATTATAAGAG-AGCACCAAATATATTTCAGTTTAAGCAAATATA
1 AGTACCTAGAACAGATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATA
78321645 GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTGTACCAGGATCAAAGACACTGCCAATGA
66 GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTGTACCAGGATCAAAGACACTGCCAATGA
*
78321710 AGCTATACACCTTAGCAAAATATGGCAAAACTGCACAGTAAACACAGAAGTTGGATAGAAACATG
131 AGCTATACACCTTAGCAAAATATGGCAAAACTGCACAGTAAACACATAAGTTGGATAGAAACATG
78321775 AAAACAGACCAAAAGAACATCTAAAAAACAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
196 AAAACAGACCAAAAGAACATCTAAAAAACAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
78321840 TGCACAGCTTTAAACAAACCAACTTTGCATGTGCAGAATCATACTCCACAAAACTCATAAACATT
261 TGCACAGCTTTAAACAAACCAACTTTGCATGTGCAGAATCATACTCCACAAAACTCATAAACATT
78321905 AACTTCTCCTAACCAGAATACCAACTTTATGTTTACAGAGGCCTTGATCAAAACTAACATAACTG
326 AACTTCTCCTAACCAGAATACCAACTTTATGTTTACAGAGGCCTTGATCAAAACTAACATAACTG
78321970 TTGATTTATAACTTATCTAATAAGAATCACAGAATATGCAGAAAGTACCTGAGCATTTAATTTCA
391 TTGATTTATAACTTATCTAATAAGAATCACAGAATATGCAGAAAGTACCTGAGCATTTAATTTCA
*
78322035 AGAGAACCATGTATTCGAAGGAAAAGAGCCAGAAAATGATCAATGTATGCAAAACCTGGTCTATA
456 AGAGAACCATGCATTCGAAGGAAAAGAGCCAGAAAATGATCAATGTATGCAAAACCTGGTCTATA
78322100 TTTCAAAACTGGAGTAAAGCTTTCATCTAGTACCAAATACATACATATATAGAGACACAAACACA
521 TTTCAAAACTGGAGTAAAGCTTTCATCTAGTACCAAATACATACATATATAGAGACACAAACACA
78322165 CA-GCATACATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
586 CAGGCATACATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
*
78322214 AGTACCTAGAACAGATGTAAGATTATAATAGTAGCACCAAATATATTTCAGTTTAAGCAAATATA
1 AGTACCTAGAACAGATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATA
78322279 GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTGTACCAGGATCAAAGACACTGCCAATGA
66 GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTGTACCAGGATCAAAGACACTGCCAATGA
78322344 AGCTATACACCTTAGCAAAATATGGCAAAACTGCACAGTAAACACATAAGTTGGATAGAAACATG
131 AGCTATACACCTTAGCAAAATATGGCAAAACTGCACAGTAAACACATAAGTTGGATAGAAACATG
78322409 AAAACAGACCAAAAGAACATCTAAAAAACAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
196 AAAACAGACCAAAAGAACATCTAAAAAACAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
*
78322474 TGCACAGCTTTAAACAAACCAACTTTGCATGTGTAGAATCATACTCCACAAAACTCATAAA-ATT
261 TGCACAGCTTTAAACAAACCAACTTTGCATGTGCAGAATCATACTCCACAAAACTCATAAACATT
78322538 AACTTCTCCTAACCAGAATACCAACTTTATGTTTACAGAGGCCTTGATCAAAACTAACATAACTG
326 AACTTCTCCTAACCAGAATACCAACTTTATGTTTACAGAGGCCTTGATCAAAACTAACATAACTG
*
78322603 TTGATTTATAACTTATATAATAAGAATCACAGAATATGCAGAAAGTACCTGAGCATTTAATTTCA
391 TTGATTTATAACTTATCTAATAAGAATCACAGAATATGCAGAAAGTACCTGAGCATTTAATTTCA
*
78322668 AGAGAACCATGCATTCGAAGGAAAAGAGCCAAAAAATGATCAATGTATGCAAAACCTGGTCTATA
456 AGAGAACCATGCATTCGAAGGAAAAGAGCCAGAAAATGATCAATGTATGCAAAACCTGGTCTATA
78322733 TTTCAAAACTGGAGTAAAGCTTTCATCTAGTACCAAATACATACATATATAGAGACACAAACACA
521 TTTCAAAACTGGAGTAAAGCTTTCATCTAGTACCAAATACATACATATATAGAGACACAAACACA
78322798 CAGGCATACATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
586 CAGGCATACATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
*
78322848 AGTACCTAGAACAGATGTAAGATTATAAGAGTAGCACCAAATATATTTCAATTTAAGCAAATATA
1 AGTACCTAGAACAGATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATA
78322913 GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTGTACCAGGATCAAAGACACTGCCAATGA
66 GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTGTACCAGGATCAAAGACACTGCCAATGA
78322978 AGCTATACACCTTAGCAAAATATGGCAAAACTGCACAGTAAACACATAAGTTGGATAGAAACATG
131 AGCTATACACCTTAGCAAAATATGGCAAAACTGCACAGTAAACACATAAGTTGGATAGAAACATG
78323043 AAAACAGACCAAAAGAACATCTAAAAAACAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
196 AAAACAGACCAAAAGAACATCTAAAAAACAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
*
78323108 TGCACAACTTTAAACAAACCAACTTTGCATGTGCAGAATCATACTCCACAAAACTCATAAACATT
261 TGCACAGCTTTAAACAAACCAACTTTGCATGTGCAGAATCATACTCCACAAAACTCATAAACATT
* * *
78323173 AACTTCTCCTAACCAAAATACTAACTTTATGTTTACAAAGGCCTTGATCAAAACTAACATAACTG
326 AACTTCTCCTAACCAGAATACCAACTTTATGTTTACAGAGGCCTTGATCAAAACTAACATAACTG
78323238 TTGATTTATAACTTATCTAATAAGAATCACAGAATATGCAGAAAGTACCTGAGCATTTAATTTCA
391 TTGATTTATAACTTATCTAATAAGAATCACAGAATATGCAGAAAGTACCTGAGCATTTAATTTCA
78323303 AGAGAACCATGCATTCGAAGGAAAAGAGCCAGAAAATGATCAATGTATGCAAAACCTGGTCTATA
456 AGAGAACCATGCATTCGAAGGAAAAGAGCCAGAAAATGATCAATGTATGCAAAACCTGGTCTATA
78323368 TTTC-AAACTGGAGTAAAGCTTTCATCTAGTACCAAATACATACATATATAGAGACACAAACACA
521 TTTCAAAACTGGAGTAAAGCTTTCATCTAGTACCAAATACATACATATATAGAGACACAAACACA
78323432 CAGGCATACATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
586 CAGGCATACATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
*
78323482 AGTACCTAGAACAGATGTAAGATTATATGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATA
1 AGTACCTAGAACAGATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATA
*
78323547 GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTATACCAGGATCAAAGACACTGCCAATGA
66 GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTGTACCAGGATCAAAGACACTGCCAATGA
* *
78323612 AGCTATACACCTTAGCAAAATATGGCAAAACTGTACAGTAAACACAGAAGTTGGATAGAAACATG
131 AGCTATACACCTTAGCAAAATATGGCAAAACTGCACAGTAAACACATAAGTTGGATAGAAACATG
78323677 AAAACAGACCAAAAGAACATCTAAAAAACAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
196 AAAACAGACCAAAAGAACATCTAAAAAACAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
*
78323742 TGCACAGCTTTAAACAAACCAACTTTGCATGTGCAGAATCATACTCCACAAAACTCATCAACATT
261 TGCACAGCTTTAAACAAACCAACTTTGCATGTGCAGAATCATACTCCACAAAACTCATAAACATT
78323807 AACTTCTCCTAACCAGAATACCAACTTTATGTTTACAGAGGCCTTGATCAAAACTAACATAACTG
326 AACTTCTCCTAACCAGAATACCAACTTTATGTTTACAGAGGCCTTGATCAAAACTAACATAACTG
* *
78323872 TTAATTTATAACTTATCTAATAAGAATCACAGAATATGCAGAAAGTACCTAAGCATTTAATTTCA
391 TTGATTTATAACTTATCTAATAAGAATCACAGAATATGCAGAAAGTACCTGAGCATTTAATTTCA
78323937 AGAGAACCATGCATTCGAAGGAAAAGAGCCAGAAAATGATCAATGTATGCAAAACCTGGTCTATA
456 AGAGAACCATGCATTCGAAGGAAAAGAGCCAGAAAATGATCAATGTATGCAAAACCTGGTCTATA
* *
78324002 TTTCAAAATTGGAGTAAAGCTTTCATCTAGTACCAAATACATACATAAATAGAGACACAAACACA
521 TTTCAAAACTGGAGTAAAGCTTTCATCTAGTACCAAATACATACATATATAGAGACACAAACACA
*
78324067 CAGGCATATATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
586 CAGGCATACATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
78324117 AGTACCTAGAACAGATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATA
1 AGTACCTAGAACAGATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATA
78324182 GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTGTACCAGGATCAAAGACACTGCCAATGA
66 GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTGTACCAGGATCAAAGACACTGCCAATGA
78324247 AGCTATACACCTTAGCAAAATATGGCAAAACTGCACAGTAAACACATAAGTTGGATAGAAACATG
131 AGCTATACACCTTAGCAAAATATGGCAAAACTGCACAGTAAACACATAAGTTGGATAGAAACATG
*
78324312 AAAACAGACCAAAAGAACATCT-AAAATCAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
196 AAAACAGACCAAAAGAACATCTAAAAAACAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
78324376 TGCACAGCTTTAAACAAACCAACTTTGCATGTGCAGAATCATACTCCACAAAACTCATAAACATT
261 TGCACAGCTTTAAACAAACCAACTTTGCATGTGCAGAATCATACTCCACAAAACTCATAAACATT
*
78324441 AACTTCTCCTAACCAGAATACCAACTTTATGTTTACAGAGGCCTTGATCAAAACTAACATAATTG
326 AACTTCTCCTAACCAGAATACCAACTTTATGTTTACAGAGGCCTTGATCAAAACTAACATAACTG
78324506 TTGATTTATAACTTATCTAATAAGAATCACAGAATATGCAGAAAGTACCTGAGCATTTAATTTCA
391 TTGATTTATAACTTATCTAATAAGAATCACAGAATATGCAGAAAGTACCTGAGCATTTAATTTCA
*
78324571 AGAGAACCATGTATTCGAAGGAAAAGAGCCAGAAAATGATCAATGTATGCAAAACCTGGTCTATA
456 AGAGAACCATGCATTCGAAGGAAAAGAGCCAGAAAATGATCAATGTATGCAAAACCTGGTCTATA
*
78324636 TTTCAAAAACTGGAGTAAAGCTTTCATCTATTACCAAATACATACATATATAGAGACACAAACAC
521 TTTC-AAAACTGGAGTAAAGCTTTCATCTAGTACCAAATACATACATATATAGAGACACAAACAC
*
78324701 ACAAGCATACATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
585 ACAGGCATACATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
78324752 AGTA
1 AGTA
78324756 AGCTTCTACA
Statistics
Matches: 2492, Mismatches: 45, Indels: 8
0.98 0.02 0.00
Matches are distributed among these distances:
633 292 0.12
634 1573 0.63
635 627 0.25
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.25
Consensus pattern (635 bp):
AGTACCTAGAACAGATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATA
GAAACTTTACCTATATCAGTTTTGCAAGTGCCCACTTGTACCAGGATCAAAGACACTGCCAATGA
AGCTATACACCTTAGCAAAATATGGCAAAACTGCACAGTAAACACATAAGTTGGATAGAAACATG
AAAACAGACCAAAAGAACATCTAAAAAACAAAAATGGAATCACCATTAGTATGTAAACATGAAAA
TGCACAGCTTTAAACAAACCAACTTTGCATGTGCAGAATCATACTCCACAAAACTCATAAACATT
AACTTCTCCTAACCAGAATACCAACTTTATGTTTACAGAGGCCTTGATCAAAACTAACATAACTG
TTGATTTATAACTTATCTAATAAGAATCACAGAATATGCAGAAAGTACCTGAGCATTTAATTTCA
AGAGAACCATGCATTCGAAGGAAAAGAGCCAGAAAATGATCAATGTATGCAAAACCTGGTCTATA
TTTCAAAACTGGAGTAAAGCTTTCATCTAGTACCAAATACATACATATATAGAGACACAAACACA
CAGGCATACATCTTCCATTACCTAAATCTGTTTCTTGCAAATAAAAGATA
Found at i:78326976 original size:13 final size:15
Alignment explanation
Indices: 78326938--78326972 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
78326928 AAATAATAAT
*
78326938 TTATATATATTTATC
1 TTATATACATTTATC
78326953 TTATATACATTTATC
1 TTATATACATTTATC
78326968 TTATA
1 TTATA
78326973 CATTAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:78327412 original size:18 final size:18
Alignment explanation
Indices: 78327389--78327438 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
78327379 TTACACCCTA
78327389 AATATATATTATAA-TCTT
1 AATATATATTATAAGT-TT
*
78327407 AATATATATTAGAAGTTT
1 AATATATATTATAAGTTT
78327425 AATATATATATATA
1 AATATATAT-TATA
78327439 TAACAAGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (18 bp):
AATATATATTATAAGTTT
Found at i:78327776 original size:41 final size:41
Alignment explanation
Indices: 78327731--78328042 Score: 470
Period size: 41 Copynumber: 7.6 Consensus size: 41
78327721 TTACTTTTTT
* *
78327731 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* *
78327772 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
*
78327813 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATC-AGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGA-CCTATA
* *
78327854 GCGGCGTTTTTCCAGAAGCGCCGCTAAAACCTCTACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* *
78327895 GCGGCGTTTTTCCAGAAGCGCCGCTAAAACCTCTACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* *
78327936 GCGGCGTTTTTACAGAAA-CGCCGCTAAAACCTCTACCTATA
1 GCGGCGTTTTTCCA-AAAGCGCCGCTAAAACCTCGACCTATA
78327977 GCGGCGTTTTT-CAAGAAGCGCCGCTAAAACCT-GACCTATA
1 GCGGCGTTTTTCCAA-AAGCGCCGCTAAAACCTCGACCTATA
78328017 GCGGCGTTTTTCCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
78328043 TTGTTCTGTT
Statistics
Matches: 259, Mismatches: 6, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
39 1 0.00
40 33 0.13
41 222 0.86
42 3 0.01
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
Found at i:78328059 original size:40 final size:40
Alignment explanation
Indices: 78328015--78328109 Score: 129
Period size: 41 Copynumber: 2.4 Consensus size: 40
78328005 ACCTGACCTA
* * *
78328015 TAGCGGCGTTTT-TCCAAAAGCGCCGCTATTGTTCTGTTTT
1 TAGCGGCGTTTTAT-AAAAAACGCCGCTATTGCTCTGTTTT
78328055 TAGCGGCGTTTTGATAAAAAACGCCGCTATTGCTCTGTTTT
1 TAGCGGCGTTTT-ATAAAAAACGCCGCTATTGCTCTGTTTT
*
78328096 TTGCGGCGTTTTAT
1 TAGCGGCGTTTTAT
78328110 TTCAAATGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 14 0.29
41 34 0.69
42 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (40 bp):
TAGCGGCGTTTTATAAAAAACGCCGCTATTGCTCTGTTTT
Found at i:78329818 original size:8 final size:9
Alignment explanation
Indices: 78329793--78329817 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
78329783 TCCCAACTTA
78329793 ATTAAAAAT
1 ATTAAAAAT
78329802 ATTAAAAAT
1 ATTAAAAAT
78329811 ATTAAAA
1 ATTAAAA
78329818 TCGTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:78329890 original size:2 final size:2
Alignment explanation
Indices: 78329883--78329912 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
78329873 AAAAATTTAT
78329883 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78329913 AGTAAAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78336528 original size:19 final size:20
Alignment explanation
Indices: 78336479--78336534 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
78336469 ACCAAAGGTC
78336479 AAGTATCGATACTTTGA-AAA
1 AAGTATCGATA-TTTGAGAAA
* *
78336499 AAGTATAGATATTTGAGCAA
1 AAGTATCGATATTTGAGAAA
78336519 AA-TATCGATATTTGAG
1 AAGTATCGATATTTGAG
78336535 GTTTTTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (20 bp):
AAGTATCGATATTTGAGAAA
Found at i:78337674 original size:132 final size:131
Alignment explanation
Indices: 78337442--78337786 Score: 500
Period size: 131 Copynumber: 2.6 Consensus size: 131
78337432 GAACAAATGA
* * * * * *
78337442 GAAATCGCAACCCAGCACGATAGGGCACAATTCT-CGAATTGCCAAACATCGAGTATCGCCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACTATTCTGCGAATTGCCAAATATCGAGCATCGCCTTCG
78337506 TTTTAAAGAATTTTTAAAAGGCATGAATGAAATTTTGAAGGGATATTCGATTATTTTGAGCAACC
66 TTTTAAAGAATTTTTAAAAGGCATGAATGAAATTTTGAAGGGATATTCGATTA-TTTGAGCAACC
78337571 AC
130 AC
*
78337573 GAGATTGCAACCCAACACGTTAGGGCACTATTCTGCGAATTGCCAAATATCGCA-CATCGCCTTC
1 GAAATTGCAACCCAACACGTTAGGGCACTATTCTGCGAATTGCCAAATATCG-AGCATCGCCTTC
* * *
78337637 GTTTAAAAGAATTTTTAAAAGGCATGAGTGAAGTTTTGAAGGGATATTCGATTATTTGAGCAACC
65 GTTTTAAAGAATTTTTAAAAGGCATGAATGAAATTTTGAAGGGATATTCGATTATTTGAGCAACC
*
78337702 GC
130 AC
* *
78337704 GAAATTGCAACCCAACACGTTAGGGCACTATT-TCGCGAATTGCCAAATATCGAATC-TCGTCTT
1 GAAATTGCAACCCAACACGTTAGGGCACTATTCT-GCGAATTGCCAAATATCG-AGCATCGCCTT
*
78337767 CGTTTTAGAGAATTTTTAAA
64 CGTTTTAAAGAATTTTTAAA
78337787 TGAATACTTA
Statistics
Matches: 194, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
130 1 0.01
131 115 0.59
132 77 0.40
133 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (131 bp):
GAAATTGCAACCCAACACGTTAGGGCACTATTCTGCGAATTGCCAAATATCGAGCATCGCCTTCG
TTTTAAAGAATTTTTAAAAGGCATGAATGAAATTTTGAAGGGATATTCGATTATTTGAGCAACCA
C
Found at i:78338376 original size:17 final size:18
Alignment explanation
Indices: 78338332--78338376 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
78338322 AGAAGTTAAC
78338332 AAAATACATGATAATAAA
1 AAAATACATGATAATAAA
*
78338350 AAAA-ATATGAT-ATAAA
1 AAAATACATGATAATAAA
78338366 AAAATACATGA
1 AAAATACATGA
78338377 CAAAACATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 11 0.46
18 4 0.17
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (18 bp):
AAAATACATGATAATAAA
Found at i:78338625 original size:17 final size:17
Alignment explanation
Indices: 78338589--78338640 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
78338579 AAAAAAATCA
* *
78338589 TAAAACAAAAAGTATTT
1 TAAAATAAAAAGTATAT
*
78338606 TAAAATAAAAAGTCTAT
1 TAAAATAAAAAGTATAT
* * *
78338623 TAAAGTAATAAGTGTAT
1 TAAAATAAAAAGTATAT
78338640 T
1 T
78338641 GATATGTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.33
Consensus pattern (17 bp):
TAAAATAAAAAGTATAT
Found at i:78338654 original size:2 final size:2
Alignment explanation
Indices: 78338642--78338677 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
78338632 AAGTGTATTG
*
78338642 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78338678 TTAAAAGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78338781 original size:2 final size:2
Alignment explanation
Indices: 78338774--78338822 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
78338764 AAGAACATGC
*
78338774 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT A- AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
78338814 AT AA AT AT A
1 AT AT AT AT A
78338823 CGGGTTTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:78338799 original size:17 final size:19
Alignment explanation
Indices: 78338775--78338822 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
78338765 AGAACATGCA
78338775 TATATATATATATATATAT-
1 TATATATATATA-ATATATG
78338794 TATATATATATAATATATG
1 TATATATATATAATATATG
*
78338813 TATAAATATA
1 TATATATATA
78338823 CGGGTTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATATATATATAATATATG
Found at i:78342527 original size:201 final size:201
Alignment explanation
Indices: 78342182--78342580 Score: 762
Period size: 201 Copynumber: 2.0 Consensus size: 201
78342172 ACCAAGAATG
78342182 TAAAGTCTATGTGCTTTGACTTTGATGTGCTCCTATATTTATTGGAATAAAAGGCTGTAATTTGT
1 TAAAGTCTATGTGCTTTGACTTTGATGTGCTCCTATATTTATTGGAATAAAAGGCTGTAATTTGT
*
78342247 TTCCACAATTTACACTTTAGTGACAAAATCTTGAATCCATATTCCATCAAAATCGAAGTTTGTAT
66 TTCCACAATTTACACCTTAGTGACAAAATCTTGAATCCATATTCCATCAAAATCGAAGTTTGTAT
78342312 ACCTGATATCTTTAACTTATCAGACCTCCAATATGTGAGCATGTAATATTTTATTCTCTGAAGAT
131 ACCTGATATCTTTAACTTATCAGACCTCCAATATGTGAGCATGTAATATTTTATTCTCTGAAGAT
78342377 ACAATT
196 ACAATT
78342383 TAAAGTCTATGTGCTTTGACTTTGATGTGCTCCTATATTTATTGGAATAAAAGGCTGTAATTTGT
1 TAAAGTCTATGTGCTTTGACTTTGATGTGCTCCTATATTTATTGGAATAAAAGGCTGTAATTTGT
* *
78342448 TTTCACAATTTACACCTTAGTGACAAAATCTTGAATCCATATTCCATTAAAATCGAAGTTTGTAT
66 TTCCACAATTTACACCTTAGTGACAAAATCTTGAATCCATATTCCATCAAAATCGAAGTTTGTAT
*
78342513 ACTTGATATCTTTAACTTATCAGACCTCCAATATGTGAGCATGTAATATTTTATTCTCTGAAGAT
131 ACCTGATATCTTTAACTTATCAGACCTCCAATATGTGAGCATGTAATATTTTATTCTCTGAAGAT
78342578 ACA
196 ACA
78342581 TCATAACTCT
Statistics
Matches: 194, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
201 194 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (201 bp):
TAAAGTCTATGTGCTTTGACTTTGATGTGCTCCTATATTTATTGGAATAAAAGGCTGTAATTTGT
TTCCACAATTTACACCTTAGTGACAAAATCTTGAATCCATATTCCATCAAAATCGAAGTTTGTAT
ACCTGATATCTTTAACTTATCAGACCTCCAATATGTGAGCATGTAATATTTTATTCTCTGAAGAT
ACAATT
Found at i:78347711 original size:2 final size:2
Alignment explanation
Indices: 78347704--78347756 Score: 97
Period size: 2 Copynumber: 26.0 Consensus size: 2
78347694 TTCATCTACC
78347704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78347746 AT AT CAT AT AT
1 AT AT -AT AT AT
78347757 TTTTTTCCTC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78347920 original size:50 final size:48
Alignment explanation
Indices: 78347860--78347969 Score: 165
Period size: 44 Copynumber: 2.3 Consensus size: 48
78347850 TCTATAATTC
*
78347860 CACTATTTATTTATATGTTTATATCAAAGCTGTCCACTTGAGTCATAGT
1 CACTAATTATTTATAT-TTTATATCAAAGCTGTCCACTTGAGTCATAGT
78347909 CACTAA--A-TTAT-TTTTATATCAAAGCTGTCCACTTGAGTCATAGT
1 CACTAATTATTTATATTTTATATCAAAGCTGTCCACTTGAGTCATAGT
78347953 CACTAAATTATTTATAT
1 CACT-AATTATTTATAT
78347970 CGTGAGCTAC
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
44 36 0.65
45 3 0.05
46 4 0.07
47 2 0.04
48 4 0.07
49 6 0.11
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (48 bp):
CACTAATTATTTATATTTTATATCAAAGCTGTCCACTTGAGTCATAGT
Found at i:78347940 original size:44 final size:44
Alignment explanation
Indices: 78347877--78347965 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
78347867 TATTTATATG
78347877 TTTATATCAAAGCTGTCCACTTGAGTCATAGTCACTAAATTATT
1 TTTATATCAAAGCTGTCCACTTGAGTCATAGTCACTAAATTATT
78347921 TTTATATCAAAGCTGTCCACTTGAGTCATAGTCACTAAATTATT
1 TTTATATCAAAGCTGTCCACTTGAGTCATAGTCACTAAATTATT
78347965 T
1 T
78347966 ATATCGTGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.39
Consensus pattern (44 bp):
TTTATATCAAAGCTGTCCACTTGAGTCATAGTCACTAAATTATT
Found at i:78348988 original size:11 final size:11
Alignment explanation
Indices: 78348972--78349013 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
78348962 TAGCTATTTA
78348972 TAATAAAATAT
1 TAATAAAATAT
78348983 TAATAAAATAT
1 TAATAAAATAT
*
78348994 CTCATTAAAATAT
1 -T-AATAAAATAT
78349007 TAATAAA
1 TAATAAA
78349014 GTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:78359130 original size:19 final size:19
Alignment explanation
Indices: 78359108--78359146 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
78359098 TGAAGTTAGT
78359108 ATCAGAGAGTCGGTTGATA
1 ATCAGAGAGTCGGTTGATA
*
78359127 ATCAGAGGGTCGGTTGATA
1 ATCAGAGAGTCGGTTGATA
78359146 A
1 A
78359147 CGATAAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (19 bp):
ATCAGAGAGTCGGTTGATA
Found at i:78364954 original size:44 final size:44
Alignment explanation
Indices: 78364772--78365019 Score: 157
Period size: 44 Copynumber: 5.6 Consensus size: 44
78364762 CTTAGCAAAC
* * *
78364772 CTTATCTCTCTGAAGTTACAGTAGAGCGGGTTAAAGTAGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAGTAGCAAGT
* * * ** *
78364816 CTTATCTCCTTGAA-TATGTAGTGGAGTAGACTAAAAGTAGC-AGAT
1 CTTATCTCCCTGAAGT-TGCAGTGGAG-CGGGTTAAAGTAGCAAG-T
*** * ** *
78364861 CTTATCTCCCTGAAGTTGCAGTGGAAAAGATCGAAGCCA-CAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAG-TAGCAAGT
* *
78364904 CCTTATCTCTCTGAAGTTGCAGTAGAGCGGGTTAAAGTAGCAAGT
1 -CTTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAGTAGCAAGT
* * * ** * *
78364949 ATTATCTCCCT-AAGTTGTAGTGGAGCAGACTGAAGATAG-TAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAG-TAGCAAG-T
*
78364993 CTTGTCTCCCTGAAGTTGCAGTGGAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGC
78365020 AATCGAAGCC
Statistics
Matches: 153, Mismatches: 39, Indels: 23
0.71 0.18 0.11
Matches are distributed among these distances:
43 23 0.15
44 80 0.52
45 49 0.32
46 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAGTAGCAAGT
Found at i:78365046 original size:133 final size:132
Alignment explanation
Indices: 78364771--78365162 Score: 486
Period size: 133 Copynumber: 2.9 Consensus size: 132
78364761 TCTTAGCAAA
* *
78364771 CCTTATCTCTCTGAAGTTACAGTAGAGCGGGTTAAAGTAGCAAGTCTTATCTCCTTGAA-TATGT
1 CCTTATCTCTCTGAAGTTACAGTAGAGCGGGTTAAAGTAGCAAGTCTTATCTCCCTAAAGT-TGT
* * *
78364835 AGTGGAGTAGACTAAAAGTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATCGAAGCCA
65 AGTGGAGCAGACTGAAAGTAGCAGATCTT-TCTCCCTGAAGTTGCAGTGGAGAAGATCGAAGCCA
78364900 CAAT
129 CAAT
* *
78364904 CCTTATCTCTCTGAAGTTGCAGTAGAGCGGGTTAAAGTAGCAAGTATTATCTCCCT-AAGTTGTA
1 CCTTATCTCTCTGAAGTTACAGTAGAGCGGGTTAAAGTAGCAAGTCTTATCTCCCTAAAGTTGTA
* *
78364968 GTGGAGCAGACTG-AAGATAGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCA-ATCGAAGCCA
66 GTGGAGCAGACTGAAAG-TAGCAGATCTT-TCTCCCTGAAGTTGCAGTGGAGAAGATCGAAGCCA
78365031 CAAT
129 CAAT
* * * * * * *
78365035 CCTTATCTCTCTGAAGTTACAATAGAGCAGGATAAAATTACCCAAGTCTAATATCCCTAAAGTTG
1 CCTTATCTCTCTGAAGTTACAGTAGAGC-GGGTTAAAGTA-GCAAGTCTTATCTCCCTAAAGTTG
* * * * * * *
78365100 CAGTGGAGCAAACTGAAATTAGCAGATCTATTCTCCCTAAAGTTCCAGCGGAGTAGATCGAAG
64 TAGTGGAGCAGACTGAAAGTAGCAGATCT-TTCTCCCTGAAGTTGCAGTGGAGAAGATCGAAG
78365163 TTAAAAATCT
Statistics
Matches: 225, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
131 43 0.19
132 57 0.25
133 67 0.30
134 48 0.21
135 10 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (132 bp):
CCTTATCTCTCTGAAGTTACAGTAGAGCGGGTTAAAGTAGCAAGTCTTATCTCCCTAAAGTTGTA
GTGGAGCAGACTGAAAGTAGCAGATCTTTCTCCCTGAAGTTGCAGTGGAGAAGATCGAAGCCACA
AT
Found at i:78378153 original size:40 final size:40
Alignment explanation
Indices: 78378075--78378155 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
78378065 TTAGTAGTTA
** *
78378075 AAACTATACTTATGTAATTCAAAAGACCATAAGATATGAT
1 AAACTATACTTACATAATTCAAAAGACCACAAGATATGAT
*
78378115 AAACTATACTTACATAATTCAGAAGACCACAATG-TATGAT
1 AAACTATACTTACATAATTCAAAAGACCACAA-GATATGAT
78378155 A
1 A
78378156 TGATGTGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (40 bp):
AAACTATACTTACATAATTCAAAAGACCACAAGATATGAT
Found at i:78378851 original size:10 final size:10
Alignment explanation
Indices: 78378836--78378895 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
78378826 AAATTTTAGG
78378836 ATTTAT-TTT
1 ATTTATCTTT
78378845 CATTTATCTTT
1 -ATTTATCTTT
78378856 ATTTATCTTT
1 ATTTATCTTT
*
78378866 AATTATCTTT
1 ATTTATCTTT
78378876 ATTTAT-TTGT
1 ATTTATCTT-T
78378886 ATTTATCTTT
1 ATTTATCTTT
78378896 TAGAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:78379804 original size:12 final size:12
Alignment explanation
Indices: 78379787--78379820 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
78379777 CCTACTTCCC
78379787 TTTTACTATTAT
1 TTTTACTATTAT
78379799 TTTTACTATTAT
1 TTTTACTATTAT
78379811 TTTTACTATT
1 TTTTACTATT
78379821 TTAAAGGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTACTATTAT
Found at i:78381304 original size:26 final size:26
Alignment explanation
Indices: 78381270--78381340 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
78381260 CTAGTTTAGC
* *
78381270 ATTACTTTTGATAAGTGCTGTGGAAAA
1 ATTA-TTTTGAGAAGTACTGTGGAAAA
* * *
78381297 GTTATTTTGAGAAGTACTTTTGAAAA
1 ATTATTTTGAGAAGTACTGTGGAAAA
78381323 ATTATTTTGAGAAGTACT
1 ATTATTTTGAGAAGTACT
78381341 TTTAAAAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
26 35 0.92
27 3 0.08
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.41
Consensus pattern (26 bp):
ATTATTTTGAGAAGTACTGTGGAAAA
Found at i:78381311 original size:13 final size:13
Alignment explanation
Indices: 78381295--78381337 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
78381285 TGCTGTGGAA
78381295 AAGTTATTTTGAG
1 AAGTTATTTTGAG
*
78381308 AAG-TACTTTTGAA
1 AAGTTA-TTTTGAG
*
78381321 AAATTATTTTGAG
1 AAGTTATTTTGAG
78381334 AAGT
1 AAGT
78381338 ACTTTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (13 bp):
AAGTTATTTTGAG
Found at i:78381341 original size:26 final size:26
Alignment explanation
Indices: 78381292--78381348 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
78381282 AAGTGCTGTG
*
78381292 GAAAAGTTATTTTGAGAAGTACTTTT
1 GAAAAATTATTTTGAGAAGTACTTTT
78381318 GAAAAATTATTTTGAGAAGTACTTTT
1 GAAAAATTATTTTGAGAAGTACTTTT
78381344 -AAAAA
1 GAAAAA
78381349 GTTTAGTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.39
Consensus pattern (26 bp):
GAAAAATTATTTTGAGAAGTACTTTT
Found at i:78381343 original size:13 final size:13
Alignment explanation
Indices: 78381301--78381343 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
78381291 GGAAAAGTTA
78381301 TTTTGAGAAGTAC
1 TTTTGAGAAGTAC
* *
78381314 TTTTGAAAAATTA-
1 TTTTG-AGAAGTAC
78381327 TTTTGAGAAGTAC
1 TTTTGAGAAGTAC
78381340 TTTT
1 TTTT
78381344 AAAAAGTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 5 0.21
13 14 0.58
14 5 0.21
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (13 bp):
TTTTGAGAAGTAC
Found at i:78382695 original size:30 final size:30
Alignment explanation
Indices: 78382659--78382727 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
78382649 CTAGCCTTTG
78382659 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
78382689 CCACCACCTACTCCACTAGTCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
78382719 CCACCACCA
1 CCACCACCA
78382728 CTTGTACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:78383247 original size:23 final size:22
Alignment explanation
Indices: 78383200--78383250 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
78383190 TTTTTTTTGT
*
78383200 TATTATTATATTTTTTAATATTA
1 TATTATTATATTTTTT-ATAATA
78383223 TATTATATATATTTCTTT-TAATA
1 TATTAT-TATATTT-TTTATAATA
78383246 TATTA
1 TATTA
78383251 GGTATATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 15 0.60
24 7 0.28
25 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTATTATATTTTTTATAATA
Found at i:78383281 original size:25 final size:24
Alignment explanation
Indices: 78383244--78383332 Score: 90
Period size: 25 Copynumber: 3.7 Consensus size: 24
78383234 TTTCTTTTAA
* *
78383244 TATATTAGGTATAT-TCTAAATTC
1 TATATTATGTATATATCTAAATAC
* *
78383267 TATATTATGTATATATATATTATAC
1 TATATTATGTATATATCTA-AATAC
* *
78383292 TATTTTATGTATATATCTTTAATAC
1 TATATTATGTATATATC-TAAATAC
*
78383317 TATATTATTTATATAT
1 TATATTATGTATATAT
78383333 TTTTTTTCTA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
23 13 0.25
24 3 0.06
25 36 0.68
26 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (24 bp):
TATATTATGTATATATCTAAATAC
Found at i:78383366 original size:27 final size:28
Alignment explanation
Indices: 78383295--78383403 Score: 86
Period size: 26 Copynumber: 4.0 Consensus size: 28
78383285 ATTATACTAT
78383295 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* * ** *
78383324 TTTATATAT-TTTTTTTCTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
78383350 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* * *
78383377 TGTATGTAT-T-TTTTTACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
78383403 T
1 T
78383404 GTACATATTT
Statistics
Matches: 62, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
24 5 0.08
25 1 0.02
26 21 0.34
27 19 0.31
28 8 0.13
29 8 0.13
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:78383377 original size:22 final size:22
Alignment explanation
Indices: 78383347--78383388 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
78383337 TTTCTACATG
*
78383347 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
78383369 TTATATTATGTATGTATTTT
1 TTATATTATGTATATATTTT
78383389 TTTACACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:78383403 original size:79 final size:81
Alignment explanation
Indices: 78383271--78383418 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 81
78383261 AAATTCTATA
* * * *
78383271 TTATGTATATATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATATTTT
1 TTATGTATATATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTT
78383336 TTTTCTACATGTTATC
66 TTTTCTACATGTTATC
* * * *
78383352 TTATGTATATAT-T-TTA-ATTATATTATGTATGTATTTTTTTACACTATATTATGTACATATTT
1 TTATGTATATATATATTATACTATATTATGTATATA-TCTTTAACACTATATTATGTACATATTT
78383414 TTTTT
65 TTTTT
78383419 TATATCTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
78 14 0.24
79 31 0.53
80 1 0.02
81 12 0.21
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (81 bp):
TTATGTATATATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTT
TTTTCTACATGTTATC
Found at i:78383507 original size:25 final size:24
Alignment explanation
Indices: 78383479--78383534 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
78383469 GTTATATTTT
*
78383479 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
78383504 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
78383527 CACTATTA
1 CACTATTA
78383535 CTATTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:78387717 original size:11 final size:11
Alignment explanation
Indices: 78387701--78387736 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
78387691 ACAAAGAAGA
*
78387701 AAAAAGTAAAG
1 AAAAAGAAAAG
78387712 AAAAAGAAAAG
1 AAAAAGAAAAG
78387723 AAAAA-AAAAG
1 AAAAAGAAAAG
78387733 AAAA
1 AAAA
78387737 CCGATTCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:78387718 original size:21 final size:20
Alignment explanation
Indices: 78387693--78387736 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
78387683 ACATGTAAAC
78387693 AAAG-AAGAAAAAAGTAAAGAA
1 AAAGAAAGAAAAAA--AAAGAA
78387714 AAAGAAAAGAAAAAAAAAGAA
1 AAAG-AAAGAAAAAAAAAGAA
78387735 AA
1 AA
78387737 CCGATTCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.57
23 9 0.43
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAGAAAGAAAAAAAAAGAA
Found at i:78391115 original size:17 final size:16
Alignment explanation
Indices: 78391074--78391111 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
78391064 ACTCAATAAC
78391074 CCCAAACCCTTACAAA
1 CCCAAACCCTTACAAA
78391090 CCCAAACCCTTACAAA
1 CCCAAACCCTTACAAA
78391106 CCCAAA
1 CCCAAA
78391112 ACCCAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.11
Consensus pattern (16 bp):
CCCAAACCCTTACAAA
Found at i:78391780 original size:14 final size:14
Alignment explanation
Indices: 78391761--78391800 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
78391751 CTCCCCTCTC
78391761 CCCCTCTCCTTTTT
1 CCCCTCTCCTTTTT
78391775 CCCCTCTCC-TTTT
1 CCCCTCTCCTTTTT
*
78391788 -CTCTCTCCTTTTT
1 CCCCTCTCCTTTTT
78391801 TTTTCTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (14 bp):
CCCCTCTCCTTTTT
Done.