Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2182
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: 59036
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Found at i:4281 original size:92 final size:92
Alignment explanation
Indices: 3994--4287 Score: 297
Period size: 92 Copynumber: 3.2 Consensus size: 92
3984 TGCAGACCAT
* * * **
3994 TTATTCCCAATCATATCCTCTTCATCTAACCAATAGATGGTATTGATATATCACAAAGCCTGATT
1 TTATTCCCAATCATATCCCCTTTATCTAACCAATAGATAGTATTGATGCATCACAAAGCCTGATT
* * *
4059 TCGTTGGGGCAAGAATATCCCGACCATAC
66 TCCTTGGGGCAAGGATATCCAGA-C-TAC
* * * * *
4088 --ATTCCCAATCATATCCCTTTTATCCAACCATTAGATTGTATTGATGCATCAAAAAGCCTGATT
1 TTATTCCCAATCATATCCCCTTTATCTAACCAATAGATAGTATTGATGCATCACAAAGCCTGATT
* ** * *
4151 TTCTAAGGGTAAGGATATCCCA-ACCAC
66 TCCTTGGGGCAAGGATAT-CCAGACTAC
* * * * * *
4178 TCATTCACAATCATATCCCCTTTATCTAACTACTAGATAGTATTGATGCATCACAAAGACTCATT
1 TTATTCCCAATCATATCCCCTTTATCTAACCAATAGATAGTATTGATGCATCACAAAGCCTGATT
** *
4243 TCCTTGGGGCAAGGGCATCTAGACTAC
66 TCCTTGGGGCAAGGATATCCAGACTAC
4270 TTATTCCCAATCATATCC
1 TTATTCCCAATCATATCC
4288 TTTTCTTTTA
Statistics
Matches: 160, Mismatches: 36, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
90 2 0.01
91 3 0.02
92 153 0.96
93 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (92 bp):
TTATTCCCAATCATATCCCCTTTATCTAACCAATAGATAGTATTGATGCATCACAAAGCCTGATT
TCCTTGGGGCAAGGATATCCAGACTAC
Found at i:5016 original size:44 final size:44
Alignment explanation
Indices: 4920--5069 Score: 169
Period size: 44 Copynumber: 3.4 Consensus size: 44
4910 TGATGGTTTA
* * * * * *
4920 GCCCTGGTCAAACTTTTTTCACTATCGTTTGATGTGATAACTCT
1 GCCCTAGTCAAACTCTTTTCACTTTCGTTTGACGTGATGATTCT
** * *
4964 AACATAGTCAAACTCTTTTCACTTTCATTTGACGTGATGATTCT
1 GCCCTAGTCAAACTCTTTTCACTTTCGTTTGACGTGATGATTCT
*
5008 GCCCTAGTCAAAC-CCTTTCACTTTCGTTTGACGTGATGATT-T
1 GCCCTAGTCAAACTCTTTTCACTTTCGTTTGACGTGATGATTCT
*
5050 AGCCCTAGTCAACCTCTTTT
1 -GCCCTAGTCAAACTCTTTT
5070 TATCCTCATT
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 38 0.44
44 48 0.55
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (44 bp):
GCCCTAGTCAAACTCTTTTCACTTTCGTTTGACGTGATGATTCT
Found at i:5286 original size:85 final size:85
Alignment explanation
Indices: 5128--5808 Score: 680
Period size: 85 Copynumber: 8.1 Consensus size: 85
5118 TAAACTTATC
* *
5128 AGGTAAA-TCCTTTTATCCTTTGTTGACTTGTCAATTCAATCTCGATCAA-TATTTGTATCCTTT
1 AGGTAAATTCTTTTTATCCTTTGTTGACTTGTC-GTTCAATCTCGATCAACT-TTTGTATCCTTT
* *
5191 GTTTATCTATCAGCTTAGTCTT
64 GTTTACCTATCAGCTTAGTCCT
* * * *
5213 AGGTAAATTCTTTTT-TCCTTTGTTAACTTGTCGTTTCAATCTCGGTCAACTTTTGTATACTTTA
1 AGGTAAATTCTTTTTATCCTTTGTTGACTTGTCG-TTCAATCTCGATCAACTTTTGTATCCTTTG
* *
5277 TTTACCTATCGGTTTAGTCCT
65 TTTACCTATCAGCTTAGTCCT
* * * * * *
5298 GGGTAAATT-TTTTTATCCTTTGTTAACTTGTCGGTTCAATCCCAATCAATTTTTGTATCCTTTA
1 AGGTAAATTCTTTTTATCCTTTGTTGACTTGTC-GTTCAATCTCGATCAACTTTTGTATCCTTTG
5362 TTTACCTATC-GACTTAGTCCT
65 TTTACCTATCAG-CTTAGTCCT
* * * * *
5383 AGGTAAA-TCCTTTTATCTTTTCTTGACTTGTCAGTTCAATCTCGATCAACTTTTCTATCTTTTG
1 AGGTAAATTCTTTTTATCCTTTGTTGACTTGTC-GTTCAATCTCGATCAACTTTTGTATCCTTTG
* * * *
5447 TTGACCTGTCGGCTTAGTCCCC
65 TTTACCTATCAGCTTAGT-CCT
5469 A-GTAAA-TCTTTTTATCCTTTGTTGACTTGTCGGTTCAATC-CTGATCAACTTTTGTATCCTTT
1 AGGTAAATTCTTTTTATCCTTTGTTGACTTGTC-GTTCAATCTC-GATCAACTTTTGTATCCTTT
* * *
5531 GTTTACCTGTCGGCTTAGTCCC
64 GTTTACCTATCAGCTTAGTCCT
* * * *
5553 GGGTAAA-TCTTTTTATCTTTTGTTGACTTGTCGGTTCAATCCCGATCAAC-TTTCTATCCTTTG
1 AGGTAAATTCTTTTTATCCTTTGTTGACTTGTC-GTTCAATCTCGATCAACTTTTGTATCCTTTG
* **
5616 TTTACCTATCAGGTTAGTTTT
65 TTTACCTATCAGCTTAGTCCT
* * * * *
5637 GGGTGAA-TCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCAATCAACTTTTTTATCCTTTG
1 AGGTAAATTCTTTTTATCCTTTGTTGACTTGTC-GTTCAATCTCGATCAACTTTTGTATCCTTTG
* *
5701 TTTTCCTATC-GATTTAGTCCT
65 TTTACCTATCAG-CTTAGTCCT
* * * *
5722 AGGTAAA-TCTTTTTATCCTTTGTTGACTT-TCCAGTTCAATCCCGGTGAACTTTTGTAT--TAT
1 AGGTAAATTCTTTTTATCCTTTGTTGACTTGT-C-GTTCAATCTCGATCAACTTTTGTATCCTTT
*
5783 G--TACCTATCAGCTTAGTCCC
64 GTTTACCTATCAGCTTAGTCCT
5803 AGGTAA
1 AGGTAA
5809 CCCTTTTCAT
Statistics
Matches: 509, Mismatches: 71, Indels: 36
0.83 0.12 0.06
Matches are distributed among these distances:
81 20 0.04
82 1 0.00
83 3 0.01
84 84 0.17
85 388 0.76
86 13 0.03
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (85 bp):
AGGTAAATTCTTTTTATCCTTTGTTGACTTGTCGTTCAATCTCGATCAACTTTTGTATCCTTTGT
TTACCTATCAGCTTAGTCCT
Found at i:5350 original size:42 final size:42
Alignment explanation
Indices: 5133--5765 Score: 250
Period size: 42 Copynumber: 14.9 Consensus size: 42
5123 TTATCAGGTA
* ** *
5133 AATCCTTTTATCCTTTGTTGACTTGTCAATTCAATCTCGATC
1 AATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCCGATC
* * * * * * ** * *
5175 AATATTTGTATCCTTTGTTTA-TCTATCAGCTT-AGTCTTAGGTA
1 AATCTTTTTATCCTTTGTTGACT-TGTC-GGTTCAATC-CCGATC
* * * *
5218 AATTCTTTTT-TCCTTTGTTAACTTGTCGTTTCAATCTCGGTC
1 AA-TCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCCGATC
* * * * * * * * * *
5260 AA-CTTTTGTATACTTTATTTACCTATCGGTTTAGTCCTGGGTA
1 AATCTTTT-TATCCTTTGTTGACTTGTCGGTTCAATCC-CGATC
* * *
5303 AATTTTTTTATCCTTTGTTAACTTGTCGGTTCAATCCCAATC
1 AATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCCGATC
* * * * * * * * *
5345 AAT-TTTTGTATCCTTTATTTACCTATCGACTT-AGTCCTAGGTA
1 AATCTTTT-TATCCTTTGTTGACTTGTCG-GTTCAATCC-CGATC
* * * * *
5388 AATCCTTTTATCTTTTCTTGACTTGTCAGTTCAATCTCGATC
1 AATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCCGATC
* * * * *
5430 AA-CTTTTCTATCTTTTGTTGACCTGTCGGCTT-AGTCCCCAGTA
1 AATCTTTT-TATCCTTTGTTGACTTGTCGG-TTCAATCCCGA-TC
*
5473 AATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCTGATC
1 AATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCCGATC
* * * * *
5515 AA-CTTTTGTATCCTTTGTTTACCTGTCGGCTT-AGTCCCGGGTA
1 AATCTTTT-TATCCTTTGTTGACTTGTCGG-TTCAATCCC-GATC
*
5558 AATCTTTTTATCTTTTGTTGACTTGTCGGTTCAATCCCGATC
1 AATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCCGATC
* * * * * *** * *
5600 AA-CTTTCTATCCTTTGTTTACCTATCAGGTT-AGTTTTGGGTG
1 AATCTTTTTATCCTTTGTTGACTTGTC-GGTTCA-ATCCCGATC
* * * *
5642 AATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCAATC
1 AATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCCGATC
** * * * * * * * *
5684 AA-CTTTTTTATCCTTTGTTTTCCTATCGATTTAGTCCTAGGTA
1 AATC-TTTTTATCCTTTGTTGACTTGTCGGTTCAATCC-CGATC
*
5727 AATCTTTTTATCCTTTGTTGACTT-TCCAGTTCAATCCCG
1 AATCTTTTTATCCTTTGTTGACTTGT-CGGTTCAATCCCG
5766 GTGAACTTTT
Statistics
Matches: 422, Mismatches: 136, Indels: 66
0.68 0.22 0.11
Matches are distributed among these distances:
40 5 0.01
41 36 0.09
42 179 0.42
43 178 0.42
44 24 0.06
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (42 bp):
AATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCCGATC
Found at i:5494 original size:43 final size:44
Alignment explanation
Indices: 5432--5622 Score: 175
Period size: 43 Copynumber: 4.5 Consensus size: 44
5422 TCTCGATCAA
* *
5432 CTTTTCTATCTTTTGTTGACCTGTCGGCTTAGTCCCCAGTAAAT
1 CTTTTCTATCCTTTGTTGACCTGTCGGCTTAGTCCCGAGTAAAT
* * * *
5476 CTTTT-TATCCTTTGTTGACTTGTCGG-TTCAATCCTGA-TCAA-
1 CTTTTCTATCCTTTGTTGACCTGTCGGCTT-AGTCCCGAGTAAAT
* * *
5517 CTTTTGTATCCTTTGTTTACCTGTCGGCTTAGTCCCGGGTAAAT
1 CTTTTCTATCCTTTGTTGACCTGTCGGCTTAGTCCCGAGTAAAT
* * * *
5561 CTTTT-TATCTTTTGTTGACTTGTCGG-TTCAATCCCGA-TCAA-
1 CTTTTCTATCCTTTGTTGACCTGTCGGCTT-AGTCCCGAGTAAAT
*
5602 C-TTTCTATCCTTTGTTTACCT
1 CTTTTCTATCCTTTGTTGACCT
5623 ATCAGGTTAG
Statistics
Matches: 119, Mismatches: 21, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
40 3 0.03
41 19 0.16
42 34 0.29
43 53 0.45
44 10 0.08
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (44 bp):
CTTTTCTATCCTTTGTTGACCTGTCGGCTTAGTCCCGAGTAAAT
Found at i:5584 original size:255 final size:254
Alignment explanation
Indices: 5128--5826 Score: 851
Period size: 255 Copynumber: 2.8 Consensus size: 254
5118 TAAACTTATC
* *
5128 AGGTAAATCCTTTTATCCTTTGTTGACTTGTCAATTCAATCTCGATCAA-TATTTGTATCCTTTG
1 AGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGATCAACT-TTTCTATCCTTTG
* * * * *
5192 TTTATCTATCAGCTTAGTCTTAGGTAAATTCTTTTT-TCCTTTGTTAACTTGTCGTTTCAAT-CT
65 TTTACCTATCGGCTTAGTCCTAGGTAAA-TCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCT
* * *
5255 CGGTCAACTTTTGTATACTTTATTTACCTATCGGTTTAGTCCTGGGTAAATTTTTTTATCCTTTG
129 -GGTCAACTTTTGTATACTTTATTTACCTATCGGCTTAGTCCCGGGTAAATCTTTTTATCCTTTG
* *
5320 TTAACTTGTCGGTTCAATCCCAATCAATTTTTGTATCCTTTATTTACCTATC-GACTTAGTCCT
193 TTAACTTGTCGGTTCAATCCCAATCAA-CTTTCTATCCTTTATTTACCTATCAG-CTTAGTCCT
* * *
5383 AGGTAAATCCTTTTATCTTTTCTTGACTTGTCAGTTCAATCTCGATCAACTTTTCTATCTTTTGT
1 AGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGATCAACTTTTCTATCCTTTGT
* * *
5448 TGACCTGTCGGCTTAGTCCCCA-GTAAATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCTG
66 TTACCTATCGGCTTAGT-CCTAGGTAAATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCTG
* * * * *
5512 ATCAACTTTTGTATCCTTTGTTTACCTGTCGGCTTAGTCCCGGGTAAATCTTTTTATCTTTTGTT
130 GTCAACTTTTGTATACTTTATTTACCTATCGGCTTAGTCCCGGGTAAATCTTTTTATCCTTTGTT
* * * * **
5577 GACTTGTCGGTTCAATCCCGATCAACTTTCTATCCTTTGTTTACCTATCAGGTTAGTTTT
195 AACTTGTCGGTTCAATCCCAATCAACTTTCTATCCTTTATTTACCTATCAGCTTAGTCCT
* * * *
5637 GGGTGAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCAATCAACTTTTTTATCCTTTGT
1 AGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGATCAACTTTTCTATCCTTTGT
* ** * *
5702 TTTCCTATCGATTTAGTCCTAGGTAAATCTTTTTATCCTTTGTTGACTT-TCCAGTTCAATCCCG
66 TTACCTATCGGCTTAGTCCTAGGTAAATCTTTTTATCCTTTGTTGACTTGT-CGGTTCAATCCTG
* * * * ** * *
5766 GTGAACTTTTG--TA--TTATGTACCTATCAGCTTAGTCCCAGGTAACCCTTTTCATTCTTTGTT
130 GTCAACTTTTGTATACTTTATTTACCTATCGGCTTAGTCCCGGGTAAATCTTTTTATCCTTTGTT
5827 GACCTGACTG
Statistics
Matches: 380, Mismatches: 57, Indels: 19
0.83 0.12 0.04
Matches are distributed among these distances:
250 38 0.10
252 1 0.00
253 4 0.01
254 151 0.40
255 181 0.48
256 5 0.01
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (254 bp):
AGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTCGATCAACTTTTCTATCCTTTGT
TTACCTATCGGCTTAGTCCTAGGTAAATCTTTTTATCCTTTGTTGACTTGTCGGTTCAATCCTGG
TCAACTTTTGTATACTTTATTTACCTATCGGCTTAGTCCCGGGTAAATCTTTTTATCCTTTGTTA
ACTTGTCGGTTCAATCCCAATCAACTTTCTATCCTTTATTTACCTATCAGCTTAGTCCT
Found at i:7391 original size:19 final size:19
Alignment explanation
Indices: 7367--7430 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
7357 TTTCAACGAT
7367 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
7386 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
7400 -TATATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
7418 TGGTATCGATACA
1 TTGTATCGATACA
7431 ATGTATCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:7406 original size:32 final size:32
Alignment explanation
Indices: 7368--7475 Score: 164
Period size: 32 Copynumber: 3.4 Consensus size: 32
7358 TTCAACGATT
7368 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
7400 TATATCGATACATAAGTGTGGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
7432 TGTATCGATACATAAGTTTTGTAAT-GATACAA
1 TGTATCGATACATAAGTGTTGT-ATCGATACAA
*
7464 TGTATCGCTACA
1 TGTATCGATACA
7476 AAGCTACTGC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
32 67 0.97
33 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:7438 original size:13 final size:13
Alignment explanation
Indices: 7387--7443 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
7377 ACATAAGTGT
7387 TGTATCGATACAA
1 TGTATCGATACAA
*
7400 TATATCGATACATAA
1 TGTATCGATAC--AA
7415 GTGTGGTATCGATACAA
1 ---T-GTATCGATACAA
7432 TGTATCGATACA
1 TGTATCGATACA
7444 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 21 0.58
14 1 0.03
15 2 0.06
17 2 0.06
18 1 0.03
19 9 0.25
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7567 original size:51 final size:52
Alignment explanation
Indices: 7493--7642 Score: 248
Period size: 52 Copynumber: 2.9 Consensus size: 52
7483 TGCCAAGAAA
* * *
7493 ATGTATCGATACATTACTCAAATGTATCGATACATGTAGGCAAATTTGCC-AG
1 ATGTATCGATACACTA-TGAAATGTATCGATACATGCAGGCAAATTTGCCTAG
*
7545 ATGTATCGATACACTATGAAATGTATCGATACATACAGGCAAATTTGCCTAG
1 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCCTAG
7597 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
7643 TCATATTTTG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 30 0.33
52 62 0.67
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCCTAG
Found at i:11640 original size:92 final size:92
Alignment explanation
Indices: 11350--12105 Score: 1073
Period size: 92 Copynumber: 8.0 Consensus size: 92
11340 GTTAAAGATG
* *
11350 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAATGACAAAGGCGCCAAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT----AAA-GATAAAGGTGCCAAT
* *
11415 ATGCTGATTCAAGGCCAGCGATATTTGACCTAAAGATG
61 ATGCTGATTCAAGGCCAGCGATATTGGA-CT-----TA
**
11453 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAGGCACCAATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGAT---AAAGGTGCCAATA
*
11518 TGCTGATTCAAGGCTAGCGATATTGGACTTA
62 TGCTGATTCAAGGCCAGCGATATTGGACTTA
* *
11549 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
11614 GATTCAAGGCCAGCGATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
* * * * *
11641 AAGGTGCCAATGTACTGATTTAAGGCTAGCGACATTGGTCTTAAAGGA-AAAGGTGCCAATATGT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA-GATAAAGGTGCCAATATGC
*
11705 TTATTCAAGGCCAGCGATATTGGACTTA
65 TGATTCAAGGCCAGCGATATTGGACTTA
* * *
11733 AAGGTGCCAATGTGCTGATTCAAGCCCAGCTACATTGGACTTAAAGATAAAGGTGCTAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* *
11798 GATTCAAGGCCAGCAATATTGGACTTG
66 GATTCAAGGCCAGCGATATTGGACTTA
* *
11825 GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* *
11890 GATTCAAGGCCAACGATATTAGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
* *
11917 GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
*
11982 GATTCAAGGCCAACGATATTGGACTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
* *
12009 AAGGTGCCAATGTGCTGATTCAAGCCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
* *
12074 AATTCAAGGCCAGCGATATTGGGCTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
12101 GAAGG
1 -AAGG
12106 GTTGCCAGTT
Statistics
Matches: 608, Mismatches: 39, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
91 2 0.00
92 466 0.77
93 6 0.01
95 5 0.01
96 42 0.07
99 2 0.00
100 4 0.01
101 2 0.00
102 37 0.06
103 42 0.07
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (92 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTA
Found at i:12144 original size:33 final size:33
Alignment explanation
Indices: 12100--12294 Score: 187
Period size: 33 Copynumber: 5.9 Consensus size: 33
12090 TATTGGGCTT
* * * *
12100 AGAAGGGTTGCCAGTTACTTATGTGGGCTTTAG
1 AGAATGGTTGCCACTAACTTGTGTGGGCTTTAG
*
12133 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACTAACTTGTGTGGGCTTTAG
* *
12166 AGAATGGTTGCCTCTGACTTGTGTGGGCTTTAG
1 AGAATGGTTGCCACTAACTTGTGTGGGCTTTAG
* ** * *
12199 AAAATGGTTGCCACCGACTTTTATGGGCTTTAG
1 AGAATGGTTGCCACTAACTTGTGTGGGCTTTAG
* * *
12232 AG--GGGATTGCCACCAACTTGTGTGGGCGTTAG
1 AGAATGG-TTGCCACTAACTTGTGTGGGCTTTAG
* * ** *
12264 AAAAAGGTTGCCACCGACTTTTGTGGGCTTT
1 AGAATGGTTGCCACTAACTTGTGTGGGCTTT
12295 GAAAAGAAAA
Statistics
Matches: 135, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
31 2 0.01
32 23 0.17
33 108 0.80
34 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.32
Consensus pattern (33 bp):
AGAATGGTTGCCACTAACTTGTGTGGGCTTTAG
Found at i:12196 original size:66 final size:65
Alignment explanation
Indices: 12116--12294 Score: 234
Period size: 65 Copynumber: 2.7 Consensus size: 65
12106 GTTGCCAGTT
* * * * * *
12116 ACTTATGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTTAGAGAATGG-TTGCCTC
1 ACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTTTGTGGGCTTTAGAG--GGGATTGCCAC
**
12180 TG
64 CA
*
12182 ACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTTTATGGGCTTTAGAGGGGATTGCCACCA
1 ACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTTTGTGGGCTTTAGAGGGGATTGCCACCA
* *
12247 ACTTGTGTGGGCGTTAGAAAAAGGTTGCCACCGACTTTTGTGGGCTTT
1 ACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTTTGTGGGCTTT
12295 GAAAAGAAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 2 0.02
65 51 0.51
66 47 0.47
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.32
Consensus pattern (65 bp):
ACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTTTGTGGGCTTTAGAGGGGATTGCCACCA
Found at i:12267 original size:65 final size:65
Alignment explanation
Indices: 12093--12294 Score: 239
Period size: 66 Copynumber: 3.1 Consensus size: 65
12083 CCAGCGATAT
*** * * * *
12093 TGGGC-TTAGA-AGGGTTGCCAGTTACTTATGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTTTG
* * **
12156 TGGGCTTTAGAGAATGGTTGCCTCTGACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTTT
1 TGGGCTTTAGAG-AGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTTT
*
12221 A
65 G
* *
12222 TGGGCTTTAGAG-GGGATTGCCACCAACTTGTGTGGGCGTTAGAAAAAGGTTGCCACCGACTTTT
1 TGGGCTTTAGAGAGGG-TTGCCACCAACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTTT
12286 G
65 G
12287 TGGGCTTT
1 TGGGCTTT
12295 GAAAAGAAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
63 5 0.04
64 7 0.06
65 51 0.43
66 56 0.47
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (65 bp):
TGGGCTTTAGAGAGGGTTGCCACCAACTTGTGTGGGCTTTAGAAAATGGTTGCCACCGACTTTTG
Found at i:12275 original size:98 final size:97
Alignment explanation
Indices: 12123--12299 Score: 257
Period size: 98 Copynumber: 1.8 Consensus size: 97
12113 GTTACTTATG
* * * * * *
12123 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTTAGAGAATGGTTGCCTCTGACTTGT
1 TGGGCTTTAGAG-AGGGTTGCCACCAACTTGTGTGGGCGTTAGAAAAAGGTTGCCACCGACTTGT
12188 GTGGGCTTTAGAAAATGGTTGCCACCGACTTTTA
65 GTGGGCTTT-GAAAATGGTTGCCACCGACTTTTA
*
12222 TGGGCTTTAGAG-GGGATTGCCACCAACTTGTGTGGGCGTTAGAAAAAGGTTGCCACCGACTTTT
1 TGGGCTTTAGAGAGGG-TTGCCACCAACTTGTGTGGGCGTTAGAAAAAGGTTGCCACCGACTTGT
12286 GTGGGCTTTGAAAA
65 GTGGGCTTTGAAAA
12300 GAAAAAGGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
97 7 0.10
98 51 0.73
99 12 0.17
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (97 bp):
TGGGCTTTAGAGAGGGTTGCCACCAACTTGTGTGGGCGTTAGAAAAAGGTTGCCACCGACTTGTG
TGGGCTTTGAAAATGGTTGCCACCGACTTTTA
Found at i:12344 original size:33 final size:34
Alignment explanation
Indices: 12287--12399 Score: 140
Period size: 34 Copynumber: 3.4 Consensus size: 34
12277 CCGACTTTTG
*
12287 TGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTA
1 TGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTGA
* * *
12321 TGGGCTTTAAAAAG-AAAAGGTGCCACGGTGTGG
1 TGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTGA
* *
12354 TGGTCTTGGAAAAGAAAAAGGTGCCACGGAGTCG-
1 TGGGCTTTGAAAAGAAAAAGGTGCCACGGAGT-GA
*
12388 TGGACTTTGAAA
1 TGGGCTTTGAAA
12400 TGAGATTGCC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
33 27 0.40
34 39 0.58
35 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (34 bp):
TGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTGA
Found at i:20611 original size:51 final size:52
Alignment explanation
Indices: 20485--20634 Score: 239
Period size: 52 Copynumber: 2.9 Consensus size: 52
20475 CAAAATATGA
20485 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* *
20537 AAATTTGCCTGTATGTATTGATACATTTCATAGTGTATCGATACATCT-GGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* * *
20588 AAATTTGCCTACATGTATCGATACATTTGAGTAATGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTCA-TAGTGTATCGATACAT
20635 TTTCTTGGCA
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 29 0.32
52 61 0.68
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:20616 original size:22 final size:21
Alignment explanation
Indices: 20590--20636 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
20580 CATCTGGCAA
*
20590 ATTTGCCTACATGTATCGATAC
1 ATTTGACTA-ATGTATCGATAC
*
20612 ATTTGAGTAATGTATCGATAC
1 ATTTGACTAATGTATCGATAC
20633 ATTT
1 ATTT
20637 TCTTGGCAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
ATTTGACTAATGTATCGATAC
Found at i:20695 original size:19 final size:19
Alignment explanation
Indices: 20673--20761 Score: 58
Period size: 19 Copynumber: 5.3 Consensus size: 19
20663 ATTGTATCAT
20673 TACAAAACTTATGTATCGA
1 TACAAAACTTATGTATCGA
20692 TAC---A--T-TGTATCGA
1 TACAAAACTTATGTATCGA
* *
20705 TACCACACTTATGTATCGA
1 TACAAAACTTATGTATCGA
*
20724 T---ATA--T-TGTATCGA
1 TACAAAACTTATGTATCGA
*
20737 TACAACACTTATGTATCGA
1 TACAAAACTTATGTATCGA
20756 TACAAA
1 TACAAA
20762 TCGTTGAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 24
0.67 0.04 0.29
Matches are distributed among these distances:
13 20 0.36
14 2 0.04
16 6 0.11
18 2 0.04
19 25 0.45
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (19 bp):
TACAAAACTTATGTATCGA
Found at i:20698 original size:32 final size:32
Alignment explanation
Indices: 20652--20759 Score: 164
Period size: 32 Copynumber: 3.4 Consensus size: 32
20642 GCAGTAGCTT
* *
20652 TGTAGCGATACATTGTATC-ATTACAAAACTTA
1 TGTATCGATACATTGTATCGA-TACAACACTTA
*
20684 TGTATCGATACATTGTATCGATACCACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
20716 TGTATCGATATATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
20748 TGTATCGATACA
1 TGTATCGATACA
20760 AATCGTTGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
32 68 0.99
33 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:20702 original size:13 final size:13
Alignment explanation
Indices: 20684--20740 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
20674 ACAAAACTTA
20684 TGTATCGATACAT
1 TGTATCGATACAT
20697 TGTATCGATACCACACTT
1 TGTATCGAT---ACA--T
*
20715 ATGTATCGATATAT
1 -TGTATCGATACAT
20729 TGTATCGATACA
1 TGTATCGATACA
20741 ACACTTATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 5 0.14
18 1 0.03
19 9 0.25
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:22465 original size:85 final size:85
Alignment explanation
Indices: 22372--22994 Score: 718
Period size: 85 Copynumber: 7.3 Consensus size: 85
22362 TTGAACTGGA
* *
22372 AAGTCAACAAAGGATAAAAAGATTTACCTAGGACTAAATCGATAGGAAAACAAAGGATAAAAAAG
1 AAGTCAACAAAGGATAAAAAGATTTACCTAGGACTAAACCGATAGGTAAACAAAGGATAAAAAAG
*
22437 TTGATTGAGATTGAACCGAC
66 TTGATCGAGATTGAACCGAC
* * * ** * * *
22457 AAGTCAACAAAGGATAAAAGGATTCACCCAAAACTAAGCTGATAGGTAAACAAAGGAT-AGAAAG
1 AAGTCAACAAAGGATAAAAAGATTTACCTAGGACTAAACCGATAGGTAAACAAAGGATAAAAAAG
*
22521 TTGATCGGGATTGAACCGAC
66 TTGATCGAGATTGAACCGAC
* ** * * *
22541 AAGTCAACAAAAGATAAAAAGATTTACCCGGGACTAAGCCGACAGGTAAACAAAGGATACAAAAG
1 AAGTCAACAAAGGATAAAAAGATTTACCTAGGACTAAACCGATAGGTAAACAAAGGATAAAAAAG
22606 TTGATC-AGGATTGAACCGAC
66 TTGATCGA-GATTGAACCGAC
* * * * * *
22626 AAGTCAACAAAGGATAAAAAGATTTA-CTGGGGACTAAGCCGACAGGTCAACAAAAGATAGAAAA
1 AAGTCAACAAAGGATAAAAAGATTTACCT-AGGACTAAACCGATAGGTAAACAAAGGATAAAAAA
*
22690 GTTGATCGAGATTGAACTGAC
65 GTTGATCGAGATTGAACCGAC
* * * ** *
22711 AAGTCAAGAAAAGATAAAAGGATTTACCTAGGACTAAGTCGATAGGTAAATAAAGGATACAAAAA
1 AAGTCAACAAAGGATAAAAAGATTTACCTAGGACTAAACCGATAGGTAAACAAAGGATA-AAAAA
* *
22776 -TTGATTGGGATTGAACCGAC
65 GTTGATCGAGATTGAACCGAC
* * * * * *
22796 AAGTTAACAAAGGATAAAAAAATTTACCCAGGACTAAACCGATAGGTAAATAAAGTATACAAAAG
1 AAGTCAACAAAGGATAAAAAGATTTACCTAGGACTAAACCGATAGGTAAACAAAGGATAAAAAAG
*
22861 TTGACCGAGATTGAACCGAC
66 TTGATCGAGATTGAACCGAC
* * * * * *
22881 AAGTTAACAAAGGA-AAAAAGAATTTACCTAAGACTAAGCTGATAGATAAACAAAGGATACAAAT
1 AAGTCAACAAAGGATAAAAAG-ATTTACCTAGGACTAAACCGATAGGTAAACAAAGGATA-AAAA
**
22945 A-TTGATCGAGATTGAATTGAC
64 AGTTGATCGAGATTGAACCGAC
*
22966 AAGTCAACAAAGGATAAAAGGATTTACCT
1 AAGTCAACAAAGGATAAAAAGATTTACCT
22995 GATAAGTTTA
Statistics
Matches: 458, Mismatches: 70, Indels: 20
0.84 0.13 0.04
Matches are distributed among these distances:
84 83 0.18
85 360 0.79
86 15 0.03
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (85 bp):
AAGTCAACAAAGGATAAAAAGATTTACCTAGGACTAAACCGATAGGTAAACAAAGGATAAAAAAG
TTGATCGAGATTGAACCGAC
Found at i:22583 original size:43 final size:42
Alignment explanation
Indices: 22372--22901 Score: 235
Period size: 43 Copynumber: 12.5 Consensus size: 42
22362 TTGAACTGGA
* * * *
22372 AAGTCAACAAAGGATAAAAAGATTTAC-CTAGGACTAAATCGAT
1 AAGTCAACAAAGGATAAAAAGATTGACTC-GGGACT-AACCGAC
* ** * * *
22415 AGGAAAACAAAGGATAAAAA-AGTTGA-TTGAGATTGAACCGAC
1 AAGTCAACAAAGGATAAAAAGA-TTGACTCGGGACT-AACCGAC
* * * *** * *
22457 AAGTCAACAAAGGATAAAAGGATTCACCCAAAACTAAGCTGAT
1 AAGTCAACAAAGGATAAAAAGATTGACTCGGGACTAA-CCGAC
* * * *
22500 AGGTAAACAAAGGATAGAAAG-TTGA-TCGGGATTGAACCGAC
1 AAGTCAACAAAGGATAAAAAGATTGACTCGGGACT-AACCGAC
* * *
22541 AAGTCAACAAAAGATAAAAAGATTTACCCGGGACTAAGCCGAC
1 AAGTCAACAAAGGATAAAAAGATTGACTCGGGACTAA-CCGAC
* * * *
22584 AGGTAAACAAAGGATACAAAAG-TTGA-TCAGGATTGAACCGAC
1 AAGTCAACAAAGGATA-AAAAGATTGACTCGGGACT-AACCGAC
* *
22626 AAGTCAACAAAGGATAAAAAGATTTACTGGGGACTAAGCCGAC
1 AAGTCAACAAAGGATAAAAAGATTGACTCGGGACTAA-CCGAC
* * * * *
22669 AGGTCAACAAAAGATAGAAAAG-TTGA-TCGAGATTGAACTGAC
1 AAGTCAACAAAGGATA-AAAAGATTGACTCGGGACT-AACCGAC
* * * * * * *
22711 AAGTCAAGAAAAGATAAAAGGATTTAC-CTAGGACTAAGTCGAT
1 AAGTCAACAAAGGATAAAAAGATTGACTC-GGGACTAA-CCGAC
* * * * *
22754 AGGTAAATAAAGGATACAAAA-ATTGA-TTGGGATTGAACCGAC
1 AAGTCAACAAAGGATA-AAAAGATTGACTCGGGACT-AACCGAC
* * * * * *
22796 AAGTTAACAAAGGATAAAAAAATTTACCCAGGACTAAACCGAT
1 AAGTCAACAAAGGATAAAAAGATTGACTCGGGACT-AACCGAC
* * * * * *
22839 AGGTAAATAAAGTATACAAAAG-TTGAC-CGAGATTGAACCGAC
1 AAGTCAACAAAGGATA-AAAAGATTGACTCGGGACT-AACCGAC
*
22881 AAGTTAACAAAGGA-AAAAAGA
1 AAGTCAACAAAGGATAAAAAGA
22902 ATTTACCTAA
Statistics
Matches: 352, Mismatches: 108, Indels: 56
0.68 0.21 0.11
Matches are distributed among these distances:
40 5 0.01
41 37 0.11
42 142 0.40
43 151 0.43
44 17 0.05
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (42 bp):
AAGTCAACAAAGGATAAAAAGATTGACTCGGGACTAACCGAC
Found at i:22768 original size:170 final size:169
Alignment explanation
Indices: 22293--22993 Score: 783
Period size: 170 Copynumber: 4.2 Consensus size: 169
22283 AAGCAGTCAG
* * ** ** * * * *
22293 GTCAACAAAGAATGAAAAGGGTTACCTGGGACTAAGCTGATAGGT-AC-ATA-ATACAAAAGTTC
1 GTCAACAAAGGATAAAAAGATTTACCCAGGACTAAGCCGATAGGTAACAAAAGATAGAAAAGTTG
* * * * * *
22355 ACCGGGATTGAACTGGA-AAGTCAACAAAGGATAAAAAGATTTACCTAGGACTAAATCGATAGGA
66 ATCGAGATTGAAC-CGACAAGTCAACAAAAGATAAAAAGATTTACCTAGGACTAAGTCGATAGGT
* *
22419 AAACAAAGGATAAAAAAGTTGATTGAGATTGAACCGACAA
130 AAACAAAGGATACAAAAGTTGATCGAGATTGAACCGACAA
* * ** * *
22459 GTCAACAAAGGATAAAAGGATTCACCCAAAACTAAGCTGATAGGTAAACAAAGGATAG-AAAGTT
1 GTCAACAAAGGATAAAAAGATTTACCCAGGACTAAGCCGATAGGT-AACAAAAGATAGAAAAGTT
* ** * *
22523 GATCGGGATTGAACCGACAAGTCAACAAAAGATAAAAAGATTTACCCGGGACTAAGCCGACAGGT
65 GATCGAGATTGAACCGACAAGTCAACAAAAGATAAAAAGATTTACCTAGGACTAAGTCGATAGGT
22588 AAACAAAGGATACAAAAGTTGATC-AGGATTGAACCGACAA
130 AAACAAAGGATACAAAAGTTGATCGA-GATTGAACCGACAA
*** *
22628 GTCAACAAAGGATAAAAAGATTTACTGGGGACTAAGCCGACAGGTCAACAAAAGATAGAAAAGTT
1 GTCAACAAAGGATAAAAAGATTTACCCAGGACTAAGCCGATAGGT-AACAAAAGATAGAAAAGTT
* * *
22693 GATCGAGATTGAACTGACAAGTCAAGAAAAGATAAAAGGATTTACCTAGGACTAAGTCGATAGGT
65 GATCGAGATTGAACCGACAAGTCAACAAAAGATAAAAAGATTTACCTAGGACTAAGTCGATAGGT
* * * *
22758 AAATAAAGGATACAAAAATTGATTGGGATTGAACCGACAA
130 AAACAAAGGATACAAAAGTTGATCGAGATTGAACCGACAA
* * * *
22798 GTTAACAAAGGATAAAAAAATTTACCCAGGACTAAACCGATAGGTAA-ATAAAGTATACAAAAGT
1 GTCAACAAAGGATAAAAAGATTTACCCAGGACTAAGCCGATAGGTAACA-AAAG-ATAGAAAAGT
* * * *
22862 TGACCGAGATTGAACCGACAAGTTAACAAAGGA-AAAAAGAATTTACCTAAGACTAAG-CTGATA
64 TGATCGAGATTGAACCGACAAGTCAACAAAAGATAAAAAG-ATTTACCTAGGACTAAGTC-GATA
* **
22925 GATAAACAAAGGATACAAATA-TTGATCGAGATTGAATTGACAA
127 GGTAAACAAAGGATACAAA-AGTTGATCGAGATTGAACCGACAA
*
22968 GTCAACAAAGGATAAAAGGATTTACC
1 GTCAACAAAGGATAAAAAGATTTACC
22994 TGATAAGTTT
Statistics
Matches: 450, Mismatches: 72, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
166 35 0.08
168 6 0.01
169 154 0.34
170 254 0.56
171 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (169 bp):
GTCAACAAAGGATAAAAAGATTTACCCAGGACTAAGCCGATAGGTAACAAAAGATAGAAAAGTTG
ATCGAGATTGAACCGACAAGTCAACAAAAGATAAAAAGATTTACCTAGGACTAAGTCGATAGGTA
AACAAAGGATACAAAAGTTGATCGAGATTGAACCGACAA
Found at i:22918 original size:255 final size:254
Alignment explanation
Indices: 22343--22994 Score: 857
Period size: 255 Copynumber: 2.6 Consensus size: 254
22333 TAGGTACATA
* * *
22343 ATACAAAAGTTCACCGGGATTGAACTGGA-AAGTCAACAAAGGATAAAAAGATTTACCTAGGACT
1 ATACAAAAGTTGACCGAGATTGAAC-CGACAAGTCAACAAAGGATAAAAAGATTTACCTAGGACT
** * * *
22407 AAATCGATAGGAAAACAAAGGATAAAAAAGTTGATTGAGATTGAACCGACAAGTCAACAAAGGAT
65 AAGCCGATAGGTAAACAAAGGATAAAAAAGTTGATCGAGATTGAACTGACAAGTCAACAAAGGAT
* * * *
22472 AAAAGGATTCACCCAAAACTAAGCTGATAGGTAAACAAAGGATAGAAAGTTGATCGGGATTGAAC
130 AAAAGGATTTACCTAAAACTAAGCTGATAGGTAAACAAAGGATAAAAAATTGATCGGGATTGAAC
* * *
22537 CGACAAGTCAACAAAAGATAAAAAGATTTACCCGGGACTAAGCCGACAGGTAAACAAAGG
195 CGACAAGTCAACAAAAGATAAAAAAATTTACCCAGGACTAAACCGACAGGTAAACAAAGG
* *
22597 ATACAAAAGTTGATC-AGGATTGAACCGACAAGTCAACAAAGGATAAAAAGATTTA-CTGGGGAC
1 ATACAAAAGTTGACCGA-GATTGAACCGACAAGTCAACAAAGGATAAAAAGATTTACCT-AGGAC
* * * * * *
22660 TAAGCCGACAGGTCAACAAAAGATAGAAAAGTTGATCGAGATTGAACTGACAAGTCAAGAAAAGA
64 TAAGCCGATAGGTAAACAAAGGATAAAAAAGTTGATCGAGATTGAACTGACAAGTCAACAAAGGA
** * *
22725 TAAAAGGATTTACCTAGGACTAAG-TCGATAGGTAAATAAAGGATACAAAAATTGATTGGGATTG
129 TAAAAGGATTTACCTAAAACTAAGCT-GATAGGTAAACAAAGGATA-AAAAATTGATCGGGATTG
* * * * *
22789 AACCGACAAGTTAACAAAGGATAAAAAAATTTACCCAGGACTAAACCGATAGGTAAATAAAGT
192 AACCGACAAGTCAACAAAAGATAAAAAAATTTACCCAGGACTAAACCGACAGGTAAACAAAGG
* *
22852 ATACAAAAGTTGACCGAGATTGAACCGACAAGTTAACAAAGGA-AAAAAGAATTTACCTAAGACT
1 ATACAAAAGTTGACCGAGATTGAACCGACAAGTCAACAAAGGATAAAAAG-ATTTACCTAGGACT
* * * *
22916 AAGCTGATAGATAAACAAAGGATACAAATA-TTGATCGAGATTGAATTGACAAGTCAACAAAGGA
65 AAGCCGATAGGTAAACAAAGGATA-AAAAAGTTGATCGAGATTGAACTGACAAGTCAACAAAGGA
22980 TAAAAGGATTTACCT
129 TAAAAGGATTTACCT
22995 GATAAGTTTA
Statistics
Matches: 343, Mismatches: 46, Indels: 17
0.84 0.11 0.04
Matches are distributed among these distances:
253 5 0.01
254 149 0.43
255 183 0.53
256 6 0.02
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (254 bp):
ATACAAAAGTTGACCGAGATTGAACCGACAAGTCAACAAAGGATAAAAAGATTTACCTAGGACTA
AGCCGATAGGTAAACAAAGGATAAAAAAGTTGATCGAGATTGAACTGACAAGTCAACAAAGGATA
AAAGGATTTACCTAAAACTAAGCTGATAGGTAAACAAAGGATAAAAAATTGATCGGGATTGAACC
GACAAGTCAACAAAAGATAAAAAAATTTACCCAGGACTAAACCGACAGGTAAACAAAGG
Found at i:23108 original size:43 final size:45
Alignment explanation
Indices: 23053--23212 Score: 177
Period size: 44 Copynumber: 3.7 Consensus size: 45
23043 AATGAGGATA
*
23053 AAAAGAGGTTGACTAGGGCTA-AATCATCACGTCAAACGAAAGTG
1 AAAAGAGTTTGACTAGGGCTAGAATCATCACGTCAAACGAAAGTG
* *
23097 -AAAGGGTTTGACTAGGG-TAGAATCATCACGTCAAATGAAAGTG
1 AAAAGAGTTTGACTAGGGCTAGAATCATCACGTCAAACGAAAGTG
* * * * * *
23140 AAAAGAGTTTGACTA-TGTTAGAGTTATCACATCAAACGATAGTG
1 AAAAGAGTTTGACTAGGGCTAGAATCATCACGTCAAACGAAAGTG
* * *
23184 AAAAAAGTTTGACCAGGGCTA-AACCATCA
1 AAAAGAGTTTGACTAGGGCTAGAATCATCA
23213 TGTAAAATAA
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 2 0.02
43 38 0.40
44 52 0.55
45 3 0.03
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (45 bp):
AAAAGAGTTTGACTAGGGCTAGAATCATCACGTCAAACGAAAGTG
Found at i:24134 original size:92 final size:91
Alignment explanation
Indices: 23805--24134 Score: 340
Period size: 92 Copynumber: 3.6 Consensus size: 91
23795 GTCATGTAAT
* * * * ** **
23805 CATCAATACCATCTAATAGTTA-AAAGAAAAGGATATGATTGGGAATAAGTAGTCTAGATGCCCT
1 CATCAATACCATCTAATAGTTAGATA-AAAGGGATATGATTGGGAATAAATGGTCGGGATATCCT
* *
23869 TGCCCCAAGGAAATGAGTCTTTGTGATG
65 TGCCCCAA-GAAATCAGGCTTTGTGATG
* * * *
23897 CATCAATACTATCTAGTAGTTAGATAAAAGGGATATGATTGGGAATAAGTGGTTGGGATATCCTT
1 CATCAATACCATCTAATAGTTAGATAAAAGGGATATGATTGGGAATAAATGGTCGGGATATCCTT
* ** *
23962 ACCCTTAGAAAATCAGGCTTTTTGATG
66 GCCCCAAG-AAATCAGGCTTTGTGATG
* * * ** *
23989 CATCAATACAATCTAATGGTTGGATAAAAGGGATATGATTGGGAATGTATGGTCGGGATATTCTT
1 CATCAATACCATCTAATAGTTAGATAAAAGGGATATGATTGGGAATAAATGGTCGGGATATCCTT
*
24054 GCCCCAACGAAATCAGGCTTTGTGATA
66 GCCCCAA-GAAATCAGGCTTTGTGATG
* * * *
24081 TATCAATACCATCTATTGGTTAGAT-GAAGAGGATATGATTGGGAATAAATGGTC
1 CATCAATACCATCTAATAGTTAGATAAAAG-GGATATGATTGGGAATAAATGGTC
24135 TGCACCCTCC
Statistics
Matches: 197, Mismatches: 37, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
91 4 0.02
92 190 0.96
93 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (91 bp):
CATCAATACCATCTAATAGTTAGATAAAAGGGATATGATTGGGAATAAATGGTCGGGATATCCTT
GCCCCAAGAAATCAGGCTTTGTGATG
Found at i:29743 original size:32 final size:33
Alignment explanation
Indices: 29707--29789 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 33
29697 TATTTGAAGA
**
29707 CTAAGATAGAAACCTCCCTATC-TTTTCACGAG
1 CTAAGATAGAAACCTCCCTATCTTTTTCAAAAG
*
29739 CTAAGATAGAACCTCTCTCCCTATCTTTTTCAAAAG
1 CTAAGATAGAA--AC-CTCCCTATCTTTTTCAAAAG
29775 CTAAGATAG-AACCTC
1 CTAAGATAGAAACCTC
29790 TCAATCACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
32 14 0.33
33 1 0.02
34 1 0.02
35 10 0.23
36 17 0.40
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.29
Consensus pattern (33 bp):
CTAAGATAGAAACCTCCCTATCTTTTTCAAAAG
Found at i:29765 original size:35 final size:36
Alignment explanation
Indices: 29720--29791 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
29710 AGATAGAAAC
**
29720 CTCCCTATC-TTTTCACGAGCTAAGATAGAACCTCT
1 CTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTCT
29755 CTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTCT
1 CTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTCT
29791 C
1 C
29792 AATCACTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 9 0.26
36 25 0.74
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (36 bp):
CTCCCTATCTTTTTCAAAAGCTAAGATAGAACCTCT
Found at i:31096 original size:68 final size:68
Alignment explanation
Indices: 30971--31113 Score: 207
Period size: 68 Copynumber: 2.1 Consensus size: 68
30961 AATATGAATT
* * * * *
30971 TTATACAACTCTCCCTCTAAATACGTTCTTACCTTTAAACTAATAAATAATAATCTC-TCTCCCT
1 TTATA-AACTCTCCCACTAAATACATTCTCACCCTTAAACTAATAAACAATAATCTCTTC-CCCT
31035 TTTTG
64 TTTTG
*
31040 TTATAAACTGTCCCACTAAATACATTCTCACCCTTAAACTAATAAACAATAATCTCTTCCCCTTT
1 TTATAAACTCTCCCACTAAATACATTCTCACCCTTAAACTAATAAACAATAATCTCTTCCCCTTT
31105 TTG
66 TTG
31108 TTATAA
1 TTATAA
31114 GCTAAGTTGA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
68 60 0.90
69 7 0.10
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (68 bp):
TTATAAACTCTCCCACTAAATACATTCTCACCCTTAAACTAATAAACAATAATCTCTTCCCCTTT
TTG
Found at i:31775 original size:33 final size:31
Alignment explanation
Indices: 31713--31775 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
31703 CAATTTAGTG
31713 TGTATCGATCCAAGAACATGTATCAATACAA
1 TGTATCGATCCAAGAACATGTATCAATACAA
* * *
31744 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGAT-CCAAG-AACATGTATCAATACA
31776 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
32 4 0.15
33 14 0.52
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (31 bp):
TGTATCGATCCAAGAACATGTATCAATACAA
Found at i:35758 original size:13 final size:13
Alignment explanation
Indices: 35740--35822 Score: 103
Period size: 13 Copynumber: 5.9 Consensus size: 13
35730 CATAAAGTGT
35740 TGTATCGATACAA
1 TGTATCGATACAA
35753 TGTATCGATACATAA
1 TGTATCGATAC--AA
35768 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
35785 TGTATCGATATAA
1 TGTATCGATACAA
35798 TGTATCGATACAA
1 TGTATCGATACAA
35811 TGTATCGATACA
1 TGTATCGATACA
35823 TAAGTTTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
13 47 0.76
15 2 0.03
17 2 0.03
19 11 0.18
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:35775 original size:32 final size:32
Alignment explanation
Indices: 35720--35846 Score: 185
Period size: 32 Copynumber: 4.1 Consensus size: 32
35710 TTCAACGATT
*
35720 TGTATCGATGCATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
35753 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
35785 TGTATCGAT--ATAA----TGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
35811 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
35843 TGTA
1 TGTA
35847 AGCTACTGCT
Statistics
Matches: 87, Mismatches: 1, Indels: 13
0.86 0.01 0.13
Matches are distributed among these distances:
26 22 0.25
28 4 0.05
30 4 0.05
32 45 0.52
33 12 0.14
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:35960 original size:52 final size:51
Alignment explanation
Indices: 35897--36045 Score: 203
Period size: 52 Copynumber: 2.9 Consensus size: 51
35887 ATCAATACAT
**
35897 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATTGAT-AATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
35949 TGTATCGATACACTAT-AAAATGTATCGATACATGCAGGAAAATTTGCCCAGA
1 TGTATCGATACA-T-TGATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
36001 TGTATCGATACACTATGA-AATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACA-T-TGATAATGTATCGATACATGCAGGCAAATTT
36046 TCATATTTCG
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
52 85 0.96
53 3 0.03
54 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (51 bp):
TGTATCGATACATTGATAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:42531 original size:52 final size:52
Alignment explanation
Indices: 42446--42570 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
42436 ATATGAAAAG
* *
42446 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
42498 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
42550 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
42571 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:42583 original size:52 final size:51
Alignment explanation
Indices: 42446--42590 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
42436 ATATGAAAAG
*
42446 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
42498 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
42550 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
42591 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:42597 original size:13 final size:13
Alignment explanation
Indices: 42579--42603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42569 CAAAGATCAG
42579 TGTATCGATACAA
1 TGTATCGATACAA
42592 TGTATCGATACA
1 TGTATCGATACA
42604 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:42685 original size:33 final size:33
Alignment explanation
Indices: 42643--42712 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
42633 GGCAGTAGCT
42643 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
42676 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
42709 TACA
1 TACA
42713 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:42686 original size:13 final size:13
Alignment explanation
Indices: 42668--42692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42658 CAAAAAAATA
42668 TGTATCGATACAT
1 TGTATCGATACAT
42681 TGTATCGATACA
1 TGTATCGATACA
42693 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:44702 original size:59 final size:59
Alignment explanation
Indices: 44605--44723 Score: 166
Period size: 59 Copynumber: 2.0 Consensus size: 59
44595 GAGATAATAA
* * * * ** *
44605 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTCGAGTATCCCCGGTTGTGAGAAAT
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGCTCGAGTATCCCCAATTATGAGAAAT
*
44664 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTCGAGTATCCCCAATTATGAGAAAT
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGCTCGAGTATCCCCAATTATGAGAAAT
44723 C
1 C
44724 AATATTTTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (59 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGGGGCTCGAGTATCCCCAATTATGAGAAAT
Found at i:44704 original size:28 final size:28
Alignment explanation
Indices: 44600--44709 Score: 98
Period size: 28 Copynumber: 3.8 Consensus size: 28
44590 TTTTGGAGAT
* * *
44600 AATAACGGGGTTGGAGTGTTCCCTTGAA
1 AATAACGGGGTTCGAGTATCCCCTTGAA
*
44628 AATAACGGGGCTCGAGTATCCCCGGTTGTGAGA
1 AATAACGGGGTTCGAGTATCCCC---T-TGA-A
* * *
44661 AAT--CGGGATTGGAGTATCCCCTCGAA
1 AATAACGGGGTTCGAGTATCCCCTTGAA
44687 AATAACGGGGTTCGAGTATCCCC
1 AATAACGGGGTTCGAGTATCCCC
44710 AATTATGAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
26 4 0.06
27 2 0.03
28 36 0.55
31 16 0.25
32 3 0.05
33 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTCGAGTATCCCCTTGAA
Found at i:44798 original size:27 final size:28
Alignment explanation
Indices: 44743--44813 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 28
44733 GGAATAAAGC
** *
44743 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
44771 CGGGGTT-GAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
44798 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
44814 TCAATTGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:44891 original size:52 final size:52
Alignment explanation
Indices: 44824--45135 Score: 176
Period size: 52 Copynumber: 5.9 Consensus size: 52
44814 TCAATTGTGA
*
44824 AAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAAATTGGT-GTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
* * * * **
44877 AAAATTGGCGTTTTGAAAATAAAACCAGG-GTTGGAGTATCCTCGATT-GTGG
1 AAAATTGGTGTTTTGGAAATAAAATC-GGAGTTGGAGTATCCCCGATTAAAGG
* * * * * * *
44928 AAAAATTAGTGTTTTAGCAATAAAACCGGGGTTAGAGTATCCCCTCGAAATTAACGG
1 -AAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTAT-CCC-CG--ATTAAAGG
** * * * * * *
44985 --GGTTGGAGTATCCCT-GATGAT-TAA-CGGGGTTGGAGTATCCCCGATTGTGAA-G
1 AAAATTGGTGT-T--TTGGA-AATAAAATCGGAGTTGGAGTATCCCCGA-T-TAAAGG
* *
45037 -AAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATA-G
1 AAAATTGGTG--TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
* * *
45089 AAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
1 AAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATT
45136 GTGGAGAATT
Statistics
Matches: 197, Mismatches: 41, Indels: 44
0.70 0.15 0.16
Matches are distributed among these distances:
51 39 0.20
52 69 0.35
53 34 0.17
54 29 0.15
55 15 0.08
56 6 0.03
57 5 0.03
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (52 bp):
AAAATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
Found at i:44986 original size:28 final size:28
Alignment explanation
Indices: 44954--45026 Score: 105
Period size: 27 Copynumber: 2.6 Consensus size: 28
44944 GCAATAAAAC
*
44954 CGGGGTTAGAGTATCCCCTCGA-AATTAA
1 CGGGGTTGGAGTATCCCCT-GATAATTAA
*
44982 CGGGGTTGGAGTAT-CCCTGATGATTAA
1 CGGGGTTGGAGTATCCCCTGATAATTAA
45009 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
45027 GATTGTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 2 0.05
27 23 0.56
28 16 0.39
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.26
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGATAATTAA
Found at i:45113 original size:51 final size:53
Alignment explanation
Indices: 45017--45135 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
45007 AACGGGGTTG
* * *
45017 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
45071 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
45122 GAATATCCCCGATT
1 GAGTATCCCCGATT
45136 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:46949 original size:10 final size:10
Alignment explanation
Indices: 46936--46965 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
46926 CAATGGAATA
46936 GTGTTTTTTT
1 GTGTTTTTTT
46946 GTGTTTTTTT
1 GTGTTTTTTT
46956 G-GTTTTTTT
1 GTGTTTTTTT
46965 G
1 G
46966 CTAAAGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (10 bp):
GTGTTTTTTT
Found at i:48428 original size:26 final size:26
Alignment explanation
Indices: 48399--48543 Score: 75
Period size: 26 Copynumber: 5.3 Consensus size: 26
48389 GTGTGGGCTT
48399 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
48425 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
* *
48452 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
* ** *
48480 TGGAAA-ATG-CCACCAACTTGTGTGGG-C
1 T-GAAAGGTGTCCTGC-TCTT-TG-GGGAC
48507 TTTGAAAGGTGTCCTGCTCTTTGGGGAC
1 --TGAAAGGTGTCCTGCTCTTTGGGGAC
48535 TGAAAGGTG
1 TGAAAGGTG
48544 CCACCAACTT
Statistics
Matches: 85, Mismatches: 18, Indels: 32
0.63 0.13 0.24
Matches are distributed among these distances:
25 6 0.07
26 26 0.31
27 13 0.15
28 20 0.24
29 14 0.16
30 6 0.07
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:48866 original size:55 final size:55
Alignment explanation
Indices: 48078--48865 Score: 1218
Period size: 55 Copynumber: 14.3 Consensus size: 55
48068 ATAAAGTGTA
* * * * * **
48078 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
48133 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
48188 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * *
48243 TCCTGCTCTTTGGGGACT-GAAAGGTGCCTCCAACTTGTGTGGGCTTT-AAGAGCTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
48298 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
48353 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
48408 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
48463 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
48518 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
48573 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
48628 TCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
48683 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
48738 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
48793 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
48848 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
48866 AAAAAGCGGA
Statistics
Matches: 680, Mismatches: 35, Indels: 36
0.91 0.05 0.05
Matches are distributed among these distances:
54 24 0.04
55 628 0.92
56 28 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:55556 original size:17 final size:17
Alignment explanation
Indices: 55534--55567 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55524 ACATCAATTC
*
55534 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
55551 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
55568 CTTACCTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Done.