Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
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: 3902382
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 18
Found at i:2308993 original size:68 final size:68
Alignment explanation
Indices: 2308890--2309084 Score: 291
Period size: 68 Copynumber: 2.9 Consensus size: 68
2308880 TCAACAGTAT
* * * *
2308890 TTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCTCAAAGA
1 TTAACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGA
2308955 CAC
66 CAC
* * * * *
2308958 TTAGCCTTTCATCTATCTGGTATAAATGACACCTTTCTGTCATTTGTACAGTTAGGCCTCAAAGG
1 TTAACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGA
*
2309023 TAC
66 CAC
*
2309026 TTAACCTTTCATCTAACTGGCATAAATGACACATTTCTGTCATTTGCACAGTTAGGCCT
1 TTAACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCT
2309085 ATAATCATTT
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 112 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (68 bp):
TTAACCTTTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGA
CAC
Found at i:2309429 original size:55 final size:56
Alignment explanation
Indices: 2309304--2309454 Score: 166
Period size: 55 Copynumber: 2.7 Consensus size: 56
2309294 TCTCATACGA
* * * **
2309304 AAATTCATACACTCAGTATGAATTTCTCA-GTTCGCAC-CTATGGTGCCCATACTG
1 AAATTCATACACTTAGTATGAATTTCTCATTTTTGCACACTAAAGTGCCCATACTG
*
2309358 AAATTCCTACACTTAGTATGAATTTCTCATTTTTGCACAC-AAAGTGCCCATA-TAG
1 AAATTCATACACTTAGTATGAATTTCTCATTTTTGCACACTAAAGTGCCCATACT-G
* * *
2309413 AAATTCATACATTTAGTATTAATTTCTTAATTTTTTGCACAC
1 AAATTCATACACTTAGTATGAATTTC-TCA-TTTTTGCACAC
2309455 CTAGTGCCAT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
54 28 0.34
55 40 0.49
56 3 0.04
57 11 0.13
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (56 bp):
AAATTCATACACTTAGTATGAATTTCTCATTTTTGCACACTAAAGTGCCCATACTG
Found at i:2309945 original size:95 final size:95
Alignment explanation
Indices: 2309818--2310004 Score: 243
Period size: 95 Copynumber: 2.0 Consensus size: 95
2309808 CAATACTTCT
* * * *
2309818 ATACTATGGTATCGATACCCCCTTCTGGTATCGGTACTAATTTTAGGTTCGATGTTGCCTAGTAT
1 ATACTATGGTACCGATACCCCCTTCTGGTATCGATACCAATTTTAGATTCGATGTTGCCTAGTAT
*
2309883 CGATACTCTTGCT-ATGGTATCGATACTACC
66 CGATAC-CTTGATCATGGTATCGATACTACC
* * * * *
2309913 ATACTATGGTACCGATACCCTCTTAC-GGTATCGATACCAGTTTTTGATTCGATGTTGCTTGGTA
1 ATACTATGGTACCGATACCCCCTT-CTGGTATCGATACCAATTTTAGATTCGATGTTGCCTAGTA
*
2309977 TCGATACCTTTATCATGGTATCGATACT
65 TCGATACCTTGATCATGGTATCGATACT
2310005 GATTGAATCA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
94 4 0.05
95 74 0.94
96 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (95 bp):
ATACTATGGTACCGATACCCCCTTCTGGTATCGATACCAATTTTAGATTCGATGTTGCCTAGTAT
CGATACCTTGATCATGGTATCGATACTACC
Found at i:2318026 original size:191 final size:192
Alignment explanation
Indices: 2317622--2318051 Score: 476
Period size: 191 Copynumber: 2.2 Consensus size: 192
2317612 ATACATGGTC
* * * * *
2317622 ACCTATTAGCAGTATAAATGACATTTATACATAACATCACTTTATAATTGATACTCAATGACAAC
1 ACCTAATAGCATTATGAATGACA-TTATGCATAACGTCACTTTATAATTGATACTCAATGACAAC
** * *
2317687 TAGTTATGTCATTAAATTATATAAAATTTTGTTATTAATAATTCACATCGTCACGAATAATACAT
65 TAGTTACATCACTAAATTATATAAAATTTTGTTATTAATAATTCACATCGTCACGAATAATACAA
* * * * * *
2317752 TAAAATTAATCTATATGTGACGCAAGAGATATTGTCACATTTTCAGTGACGTAATATAACGTT
130 TAAAATCAACCTATATGTGACGAAAGACATATTGTCAAATTTTCAGTGACATAATATAACGTT
* *
2317815 ACCTAATAGCATTATGAATGACACTTATGCATAACGTCATTTTATAACTT-ATATTGC-ATGACA
1 ACCTAATAGCATTATGAATGACA-TTATGCATAACGTCACTTTATAA-TTGATACT-CAATGACA
** * * *
2317878 GTTAGTTACATCACTAAATTATATAATA-TTT-TTATTAATAATTTATATCGTCACGAA-AACTA
63 ACTAGTTACATCACTAAATTATATAAAATTTTGTTATTAATAATTCACATCGTCACGAATAA-TA
* * *
2317940 CAATAAAATCAACCTATATGTTACGAAAGACATATTGTCAAATTTTTAGTGACATAATATAATGT
127 CAATAAAATCAACCTATATGTGACGAAAGACATATTGTCAAATTTTCAGTGACATAATATAACGT
2318005 T
192 T
** * * * *
2318006 ATGTAATA-CTATTTTGAATGATGATTATGCATAATGTCACCTTATA
1 ACCTAATAGC-ATTATGAATGA-CATTATGCATAACGTCACTTTATA
2318052 CAATTTTCTC
Statistics
Matches: 199, Mismatches: 33, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
190 3 0.02
191 117 0.59
192 4 0.02
193 72 0.36
194 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.37
Consensus pattern (192 bp):
ACCTAATAGCATTATGAATGACATTATGCATAACGTCACTTTATAATTGATACTCAATGACAACT
AGTTACATCACTAAATTATATAAAATTTTGTTATTAATAATTCACATCGTCACGAATAATACAAT
AAAATCAACCTATATGTGACGAAAGACATATTGTCAAATTTTCAGTGACATAATATAACGTT
Found at i:2323753 original size:19 final size:19
Alignment explanation
Indices: 2323731--2323777 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2323721 ACTGCAAATG
2323731 CCATGCTGCACCATGCCGC
1 CCATGCTGCACCATGCCGC
* * *
2323750 CCATGCTGGATCATGCTGC
1 CCATGCTGCACCATGCCGC
2323769 CC-TGCTGCA
1 CCATGCTGCA
2323778 GATTTCAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.21
Consensus pattern (19 bp):
CCATGCTGCACCATGCCGC
Found at i:2337084 original size:15 final size:15
Alignment explanation
Indices: 2337064--2337110 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
2337054 ATATAGCCCC
2337064 CCCCGGCCGTATAAT
1 CCCCGGCCGTATAAT
2337079 CCCCGGCCGTATAAT
1 CCCCGGCCGTATAAT
2337094 CCCCGGCCGTATAAT
1 CCCCGGCCGTATAAT
2337109 CC
1 CC
2337111 TTCATAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.19, C:0.43, G:0.19, T:0.19
Consensus pattern (15 bp):
CCCCGGCCGTATAAT
Found at i:2337599 original size:21 final size:21
Alignment explanation
Indices: 2337570--2337622 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2337560 ATTCTGACTA
2337570 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
2337591 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
2337612 TCGCAATGCGA
1 TCGCATTGCGA
2337623 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:2337642 original size:20 final size:20
Alignment explanation
Indices: 2337612--2337685 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
2337602 TTTTCCTAAT
2337612 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * ** *
2337632 TTGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
2337653 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
2337673 TCGCAATGCGAAT
1 TCGCAATGCGAAT
2337686 CTGACTATCG
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 27 0.66
21 14 0.34
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:2337695 original size:20 final size:20
Alignment explanation
Indices: 2337672--2337723 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
2337662 GATTACGTAA
2337672 ATCGCAATGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
*
2337692 ATCGCAATGCCAATCTGACT
1 ATCGCAATGCGAATCTGACT
*
2337712 ATCACAATGCGA
1 ATCGCAATGCGA
2337724 TTTACATAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATCTGACT
Found at i:2337927 original size:22 final size:22
Alignment explanation
Indices: 2337902--2337963 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 22
2337892 GGCGACATCC
2337902 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
2337924 GTCCCCA----CGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
2337942 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
2337964 TTCACGATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 16 0.50
22 16 0.50
ACGTcount: A:0.26, C:0.39, G:0.16, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:2338376 original size:20 final size:20
Alignment explanation
Indices: 2338351--2338397 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2338341 TCAAATCGCA
2338351 TTGCGATAGTT-ATTTTCGTG
1 TTGCGAT-GTTCATTTTCGTG
*
2338371 TTGCGATTTTCATTTTCGTG
1 TTGCGATGTTCATTTTCGTG
2338391 TTGCGAT
1 TTGCGAT
2338398 TTAAATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.51
Consensus pattern (20 bp):
TTGCGATGTTCATTTTCGTG
Found at i:2338398 original size:20 final size:20
Alignment explanation
Indices: 2338362--2338399 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2338352 TGCGATAGTT
2338362 ATTTTCGTGTTGCGATTTTC
1 ATTTTCGTGTTGCGATTTTC
2338382 ATTTTCGTGTTGCGATTT
1 ATTTTCGTGTTGCGATTT
2338400 AAATTTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.13, G:0.21, T:0.55
Consensus pattern (20 bp):
ATTTTCGTGTTGCGATTTTC
Found at i:2338405 original size:20 final size:20
Alignment explanation
Indices: 2338362--2338407 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2338352 TGCGATAGTT
**
2338362 ATTTTCGTGTTGCGATTTTC
1 ATTTTCGTGTTGCGATTTAA
2338382 ATTTTCGTGTTGCGATTTAA
1 ATTTTCGTGTTGCGATTTAA
2338402 ATTTTC
1 ATTTTC
2338408 AGAAACTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.13, G:0.17, T:0.54
Consensus pattern (20 bp):
ATTTTCGTGTTGCGATTTAA
Found at i:2340302 original size:20 final size:20
Alignment explanation
Indices: 2340277--2340360 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
2340267 AGAATAGTTT
2340277 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
2340297 ACTATCGCAACACGAAAATG
1 ACTATCGCAATGCGAAAATG
*
2340317 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
2340333 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
2340351 ACTATCGCAA
1 ACTATCGCAA
2340361 CGAAAGAATC
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
14 7 0.13
16 4 0.07
17 4 0.07
18 4 0.07
20 35 0.65
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.17
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:2340347 original size:34 final size:34
Alignment explanation
Indices: 2340300--2340381 Score: 137
Period size: 34 Copynumber: 2.4 Consensus size: 34
2340290 GAAAATGACT
** *
2340300 ATCGCAACACGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
2340334 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
2340368 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
2340382 TGAAAATCGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.13
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:2340391 original size:19 final size:18
Alignment explanation
Indices: 2340333--2340398 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
2340323 GCAACGAGAG
2340333 AATCGCAATGCGAAAATGA
1 AATCGCAATGCG-AAATGA
*
2340352 CTATCGCAA--CGAAA-G-
1 -AATCGCAATGCGAAATGA
2340367 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-A
*
2340386 AATCGCATTGCGA
1 AATCGCAATGCGA
2340399 TTCTCTCGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
14 7 0.18
16 6 0.16
17 4 0.11
18 2 0.05
19 12 0.32
20 7 0.18
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (18 bp):
AATCGCAATGCGAAATGA
Found at i:2340436 original size:20 final size:20
Alignment explanation
Indices: 2340411--2340453 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2340401 CTCTCGTTGT
2340411 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
** *
2340431 GATAGTCATTTTCGCGTTGC
1 GATAGTCAAATTCGCATTGC
2340451 GAT
1 GAT
2340454 TTTATTGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (20 bp):
GATAGTCAAATTCGCATTGC
Found at i:2340466 original size:87 final size:87
Alignment explanation
Indices: 2340375--2340544 Score: 250
Period size: 87 Copynumber: 2.0 Consensus size: 87
2340365 AGAATCGCAA
*
2340375 TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGTGATAGTCAAATTCGCATTGCGATAGTCAT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
2340440 TTTCGCGTTGCGATTTTATTGT
66 TTTCGCGTTGCGATTTTATTGT
** ** ** ** *
2340462 TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
2340527 TTTCGCGTTGCGATTTTA
66 TTTCGCGTTGCGATTTTA
2340545 AGTTTCAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (87 bp):
TGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
TTTCGCGTTGCGATTTTATTGT
Found at i:2340484 original size:33 final size:34
Alignment explanation
Indices: 2340427--2340520 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 34
2340417 CAAATTCGCA
* *
2340427 TTGCGATAGTCATTTTCGCGTTGCGATTTTATTG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTATCG
** * *
2340461 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTATCG
2340494 TTGCGATAGTCATTTTCGCGTTGCGAT
1 TTGCGATAGTCATTTTCGCGTTGCGAT
2340521 AGTCATTTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 27 0.54
34 23 0.46
ACGTcount: A:0.14, C:0.19, G:0.22, T:0.45
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCGTTGCGATTCTATCG
Found at i:2340517 original size:20 final size:20
Alignment explanation
Indices: 2340492--2340540 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
2340482 GCGATTCTCT
2340492 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
2340512 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
2340532 CGTTGCGAT
1 CGTTGCGAT
2340541 TTTAAGTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:2340550 original size:20 final size:20
Alignment explanation
Indices: 2340492--2340550 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
2340482 GCGATTCTCT
* *
2340492 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
2340512 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
2340532 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
2340551 AAATTCTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:2341052 original size:21 final size:21
Alignment explanation
Indices: 2341026--2341082 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
2341016 CTCACCTGTC
2341026 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGGCCTCCCCT
2341047 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGGCCTCCCCT
2341068 ATCGTTCAAGAGGCC
1 ATCGTTCAAGAGGCC
2341083 CCTATCATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCTCCCCT
Found at i:2341136 original size:21 final size:21
Alignment explanation
Indices: 2341025--2341152 Score: 107
Period size: 21 Copynumber: 6.1 Consensus size: 21
2341015 ACTCACCTGT
2341025 CATCGTTCAAGAGGCCTCC-CC
1 CATCGTTCAAGAGGCC-CCTCC
*
2341046 TATCGTTCAAGAGGCCTCC-CC
1 CATCGTTCAAGAGGCC-CCTCC
* **
2341067 TATCGTTCAAGAGGCCCCTAT
1 CATCGTTCAAGAGGCCCCTCC
** *
2341088 CATCCCTCAAGAGTCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* * **
2341109 CACCGTTCAAGAGGCCACTGT
1 CATCGTTCAAGAGGCCCCTCC
* *
2341130 CATCGTTGAAGAGGTCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
2341151 CA
1 CA
2341153 ACATTCTAGA
Statistics
Matches: 84, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
20 2 0.02
21 82 0.98
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.22
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:2342528 original size:14 final size:14
Alignment explanation
Indices: 2342509--2342544 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2342499 ATTGTTTAAT
2342509 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2342523 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2342537 TGATTTGT
1 TGATTTGT
2342545 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2342696 original size:33 final size:33
Alignment explanation
Indices: 2342646--2342774 Score: 186
Period size: 33 Copynumber: 3.8 Consensus size: 33
2342636 AAAACAGACT
* ** *
2342646 ATCGCAACGCGGAAATGACTATCGCAAAGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
2342680 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
2342713 ATCACAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2342746 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
2342775 CGAAACTAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
33 61 0.70
34 26 0.30
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2342805 original size:19 final size:19
Alignment explanation
Indices: 2342783--2342870 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
2342773 CGCGAAACTA
*
2342783 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2342802 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
2342820 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2342836 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
2342855 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
2342871 CTCTCATTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
14 6 0.10
16 7 0.12
17 3 0.05
18 4 0.07
19 28 0.47
20 12 0.20
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:2342882 original size:52 final size:53
Alignment explanation
Indices: 2342783--2342892 Score: 168
Period size: 52 Copynumber: 2.1 Consensus size: 53
2342773 CGCGAAACTA
* * **
2342783 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCATTGCGATAGTC
*
2342836 ATTTCGCATTGCGATTTTCA-TTTCGCATTGCGATTCTCTCATTGCGATAGTC
1 ATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCATTGCGATAGTC
2342888 ATTTC
1 ATTTC
2342893 CGTGTTACGA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
52 33 0.63
53 19 0.37
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (53 bp):
ATTTCGCATTGCGATTTTCATTTTCGCATTGCGATTCACTCATTGCGATAGTC
Found at i:2342905 original size:20 final size:20
Alignment explanation
Indices: 2342880--2342929 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2342870 TCTCTCATTG
*
2342880 CGATAGTCATTTCCGTGTTA
1 CGATAGTCATTTCCGCGTTA
* *
2342900 CGATAGTCAATTCCGCGTTG
1 CGATAGTCATTTCCGCGTTA
2342920 CGATAGTCAT
1 CGATAGTCAT
2342930 ATTCACGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (20 bp):
CGATAGTCATTTCCGCGTTA
Found at i:2342938 original size:20 final size:19
Alignment explanation
Indices: 2342877--2342943 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
2342867 GATTCTCTCA
2342877 TTGCGATAGTCAT-TTCCGTG
1 TTGCGATAGTCATATTCC--G
*
2342897 TTACGATAGTCA-ATTCCGCG
1 TTGCGATAGTCATATT-C-CG
2342917 TTGCGATAGTCATATTCACG
1 TTGCGATAGTCATATTC-CG
2342937 TTGCGAT
1 TTGCGAT
2342944 TTCCGCGTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 35 0.88
21 4 0.10
22 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGCGATAGTCATATTCCG
Found at i:2345408 original size:24 final size:24
Alignment explanation
Indices: 2345374--2345427 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2345364 CTGAAAAATC
2345374 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
2345398 ATCAAAGTCCGGGTATTTACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2345422 ATCAAA
1 ATCAAA
2345428 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2346315 original size:20 final size:20
Alignment explanation
Indices: 2346288--2346394 Score: 119
Period size: 20 Copynumber: 5.3 Consensus size: 20
2346278 CAGAATCTCG
2346288 TTGCGATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
*
2346308 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
2346328 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* **
2346348 TTGCGATTTTC-TAAATTCGTG
1 TTGCGATTTACGT--ATTCGCA
*
2346369 TTGCGATTTACGTATTCGTA
1 TTGCGATTTACGTATTCGCA
2346389 TTGCGA
1 TTGCGA
2346395 ATTAGGAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
19 2 0.03
20 57 0.77
21 14 0.19
22 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:2353908 original size:15 final size:15
Alignment explanation
Indices: 2353888--2353997 Score: 62
Period size: 15 Copynumber: 7.7 Consensus size: 15
2353878 CATATTCACT
2353888 TAGTTCACTTACACA
1 TAGTTCACTTACACA
2353903 TAGTTCACTT-C-CA
1 TAGTTCACTTACACA
*
2353916 TA--TGA-TT-CACA
1 TAGTTCACTTACACA
* *
2353927 T-G-TCACATATTCACT
1 TAGTTCAC-T-TACACA
2353942 TAGTTCACTTACACA
1 TAGTTCACTTACACA
2353957 TAGTTCACTT-C-CA
1 TAGTTCACTTACACA
*
2353970 TATGATTCACATATCACA
1 TA-G-TTCACTTA-CACA
2353988 TA-TTCACTTA
1 TAGTTCACTTA
2353998 TTCATATCAC
Statistics
Matches: 75, Mismatches: 7, Indels: 26
0.69 0.06 0.24
Matches are distributed among these distances:
10 3 0.04
11 7 0.09
13 9 0.12
14 4 0.05
15 41 0.55
16 2 0.03
17 5 0.07
18 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (15 bp):
TAGTTCACTTACACA
Found at i:2353957 original size:54 final size:53
Alignment explanation
Indices: 2353871--2354001 Score: 237
Period size: 54 Copynumber: 2.5 Consensus size: 53
2353861 ATATTATCAT
2353871 ACATTCACATATTCACTTAGTTCACTTACACATAGTTCACTTCCATATGATTC
1 ACATTCACATATTCACTTAGTTCACTTACACATAGTTCACTTCCATATGATTC
2353924 ACATGTCACATATTCACTTAGTTCACTTACACATAGTTCACTTCCATATGATTC
1 ACAT-TCACATATTCACTTAGTTCACTTACACATAGTTCACTTCCATATGATTC
2353978 ACATATCACATATTCACTTA-TTCA
1 ACAT-TCACATATTCACTTAGTTCA
2354002 TATCACATAG
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
53 8 0.11
54 68 0.89
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.37
Consensus pattern (53 bp):
ACATTCACATATTCACTTAGTTCACTTACACATAGTTCACTTCCATATGATTC
Found at i:2364026 original size:24 final size:24
Alignment explanation
Indices: 2363999--2364047 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2363989 TATATCAAAA
* *
2363999 ATCAAAACATAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGATCAAGT
* *
2364023 ATCATATCAGAAATCAGATCAAGT
1 ATCAAAACAGAAATCAGATCAAGT
2364047 A
1 A
2364048 GAATCCAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAAATCAGATCAAGT
Found at i:2364074 original size:24 final size:24
Alignment explanation
Indices: 2364047--2364123 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
2364037 CAGATCAAGT
*
2364047 AGAATCCAAGTCAAGTATCATATC
1 AGAATCCAAGTCAAGTATCAGATC
*
2364071 AGAATCCATGTC-AGATATCAGATC
1 AGAATCCAAGTCAAG-TATCAGATC
2364095 AGAATCCATA-TCAAGTATCAGATC
1 AGAATCCA-AGTCAAGTATCAGATC
2364119 AGAAT
1 AGAAT
2364124 TCAAATCGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
23 2 0.04
24 43 0.91
25 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAATCCAAGTCAAGTATCAGATC
Found at i:2364138 original size:24 final size:24
Alignment explanation
Indices: 2364047--2364141 Score: 86
Period size: 24 Copynumber: 4.0 Consensus size: 24
2364037 CAGATCAAGT
* * *
2364047 AGAATCCAAGTCAAGTATCATATC
1 AGAATCCAAATCAAGAATCAGATC
**
2364071 AGAATCCATGTC-AGATATCAGATC
1 AGAATCCAAATCAAGA-ATCAGATC
* *
2364095 AGAATCCATATCAAGTATCAGATC
1 AGAATCCAAATCAAGAATCAGATC
*
2364119 AGAATTCAAATCGAA-AATCAGAT
1 AGAATCCAAATC-AAGAATCAGAT
2364142 AAAATATTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
23 2 0.03
24 54 0.90
25 4 0.07
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (24 bp):
AGAATCCAAATCAAGAATCAGATC
Found at i:2364139 original size:48 final size:48
Alignment explanation
Indices: 2364028--2364141 Score: 115
Period size: 48 Copynumber: 2.3 Consensus size: 48
2364018 CAAGTATCAT
* *
2364028 ATCAGAAATCAGATCAAGTAGAATCCAAGTCAAGTATCATATCAGAATCCAT
1 ATCAGAAATCAGATC----AGAATCCAAGTCAAGTATCAGATCAGAATCCAA
* * *
2364080 GTCAGATATCAGATCAGAATCCATA-TCAAGTATCAGATCAGAATTCAA
1 ATCAGAAATCAGATCAGAATCCA-AGTCAAGTATCAGATCAGAATCCAA
2364128 ATC-GAAAATCAGAT
1 ATCAG-AAATCAGAT
2364142 AAAATATTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
47 1 0.02
48 38 0.72
49 1 0.02
52 13 0.25
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (48 bp):
ATCAGAAATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAA
Found at i:2365336 original size:18 final size:18
Alignment explanation
Indices: 2365315--2365349 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2365305 TGCCATCCGG
*
2365315 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
2365333 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2365350 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2373949 original size:31 final size:31
Alignment explanation
Indices: 2373873--2373949 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 31
2373863 TTGGGGCCTG
* * *
2373873 AGAGCCTACCCAAGATAATTCTCATGGCCAC
1 AGAGCCTACCCAAGAAAAATCTCAGGGCCAC
* * * *
2373904 GGAGACTTACCCAAGAAAAATCTCAGGGTCGC
1 AGAG-CCTACCCAAGAAAAATCTCAGGGCCAC
2373936 AGAGCCTACCCAAG
1 AGAGCCTACCCAAG
2373950 GGTTGACTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
31 12 0.33
32 24 0.67
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.16
Consensus pattern (31 bp):
AGAGCCTACCCAAGAAAAATCTCAGGGCCAC
Found at i:2379632 original size:4 final size:4
Alignment explanation
Indices: 2379623--2379648 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2379613 TTCATATCTT
2379623 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
2379649 ATTCCTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2381052 original size:89 final size:92
Alignment explanation
Indices: 2380876--2381067 Score: 284
Period size: 89 Copynumber: 2.1 Consensus size: 92
2380866 ATAGCTATTA
* * *
2380876 TGTTAAACTATCAGCTAAGTATGATGACGGCTACTTAGAGTTAGAAGTAGAACCCTCCCCAATCC
1 TGTTAAACTACCAGCTAAATATGATGACGACTACTTAGAGTT--AAGTAGAACCCTCCCCAATCC
2380941 AGAGCCATTGTTCCCTTACCAAATCGATG
64 AGAGCCATTGTTCCCTTACCAAATCGATG
*
2380970 TGTTAAACTACCAGCTAAATCA-GATGATGACTACTTAGAGTT-AG-A-AACCCTCCCCAATCCA
1 TGTTAAACTACCAGCTAAAT-ATGATGACGACTACTTAGAGTTAAGTAGAACCCTCCCCAATCCA
2381031 GAGCCATTGTTCCCTTACCAAATCGATG
65 GAGCCATTGTTCCCTTACCAAATCGATG
*
2381059 TATTAAACT
1 TGTTAAACT
2381068 GATTTTATTC
Statistics
Matches: 92, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
89 52 0.57
90 1 0.01
91 2 0.02
94 36 0.39
95 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (92 bp):
TGTTAAACTACCAGCTAAATATGATGACGACTACTTAGAGTTAAGTAGAACCCTCCCCAATCCAG
AGCCATTGTTCCCTTACCAAATCGATG
Found at i:2384828 original size:21 final size:19
Alignment explanation
Indices: 2384784--2384829 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
2384774 AATATATTAC
2384784 TTTAT-TATTTTTAATAAA
1 TTTATATATTTTTAATAAA
2384802 --TATATACTTTTTAATAAAA
1 TTTATATA-TTTTTAAT-AAA
2384821 TTTATATAT
1 TTTATATAT
2384830 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.13
17 2 0.09
18 8 0.35
19 3 0.13
20 1 0.04
21 6 0.26
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATATATTTTTAATAAA
Found at i:2384829 original size:25 final size:25
Alignment explanation
Indices: 2384801--2384849 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2384791 TTTTTAATAA
2384801 ATATAT-A-CTTTTTAATAAAATTT
1 ATATATAATCTTTTTAATAAAATTT
* *
2384824 ATATATAATTTTTTTTATAAAATTT
1 ATATATAATCTTTTTAATAAAATTT
2384849 A
1 A
2384850 AAAGATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 1 0.05
25 15 0.68
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATATAATCTTTTTAATAAAATTT
Found at i:2384857 original size:26 final size:25
Alignment explanation
Indices: 2384809--2384857 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2384799 AAATATATAC
* *
2384809 TTTTTAATAAAATTTATATATAATT
1 TTTTTAATAAAATTTAAAGATAATT
*
2384834 TTTTTTATAAAATTTAAAAGATAA
1 TTTTTAATAAAATTT-AAAGATAA
2384858 ATGGGTAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTTAATAAAATTTAAAGATAATT
Found at i:2385903 original size:120 final size:122
Alignment explanation
Indices: 2385684--2385922 Score: 356
Period size: 120 Copynumber: 1.9 Consensus size: 122
2385674 AAGAATGACA
2385684 ATAAAAGCTGAGGTTACTCTTATAAAAGATAAGAAACACTTAAGAAGATCAATGATGCACATCAA
1 ATAAAAGCTGAGGTTACTCTTATAAAAGAT-A-AAACACTT-A-AAGATCAATGATGCACATCAA
** *
2385749 TGTTTTAACATTTATCATTCCACAAATCTAAACATTCAGTTTAGGCCAGGAGAAGTAAAAT
62 TGTTAGAACATTTATCATTCCACAAATCCAAACATTCAGTTTAGGCCAGGAGAAGTAAAAT
2385810 ATAAAAGCTGAGGTTACTCTTATAAAAGAT-AAACACTT-AAGATCAATGATGCACATCAATGTT
1 ATAAAAGCTGAGGTTACTCTTATAAAAGATAAAACACTTAAAGATCAATGATGCACATCAATGTT
* ** * *
2385873 AGAACATTTATTATTCCGTAAATCCAAACATTTAGTTTAGGCCATGAGAA
66 AGAACATTTATCATTCCACAAATCCAAACATTCAGTTTAGGCCAGGAGAA
2385923 CTTTATTTTA
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
120 67 0.64
123 8 0.08
126 30 0.29
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (122 bp):
ATAAAAGCTGAGGTTACTCTTATAAAAGATAAAACACTTAAAGATCAATGATGCACATCAATGTT
AGAACATTTATCATTCCACAAATCCAAACATTCAGTTTAGGCCAGGAGAAGTAAAAT
Found at i:2388382 original size:17 final size:17
Alignment explanation
Indices: 2388362--2388400 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2388352 TAAATCAAAT
2388362 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
2388379 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
2388396 -AATTA
1 TAATTA
2388401 ATTGTAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:2391960 original size:2 final size:2
Alignment explanation
Indices: 2391953--2391981 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2391943 TATGTAAAGC
2391953 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2391982 GAAATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2392268 original size:24 final size:25
Alignment explanation
Indices: 2392222--2392269 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2392212 TTTGGGTATA
* *
2392222 GGTAGTTTAGGAATTTATTATTTAG
1 GGTAATTTAGGAATTTATAATTTAG
*
2392247 GGTAATTTAGGGATTTA-AATTTA
1 GGTAATTTAGGAATTTATAATTTA
2392270 AGAACGTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (25 bp):
GGTAATTTAGGAATTTATAATTTAG
Found at i:2395445 original size:15 final size:17
Alignment explanation
Indices: 2395417--2395449 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
2395407 TTAGAAATTT
2395417 TAATTGAGAGAATTTTA
1 TAATTGAGAGAATTTTA
2395434 TAATTGA-A-AATTTTA
1 TAATTGAGAGAATTTTA
2395449 T
1 T
2395450 TTCTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATTGAGAGAATTTTA
Found at i:2396017 original size:47 final size:46
Alignment explanation
Indices: 2395966--2396222 Score: 372
Period size: 47 Copynumber: 5.5 Consensus size: 46
2395956 AAAATATTAG
* *
2395966 AAGGTTAGGTGAACATTTTAAAATCATAAAGAATACATATATTTTAT
1 AAGGTTAGGTAAATATTTT-AAATCATAAAGAATACATATATTTTAT
*
2396013 AAGGTTGGGTAAATATTTTTAAATCATAAAGAATACATATATTTTAT
1 AAGGTTAGGTAAATA-TTTTAAATCATAAAGAATACATATATTTTAT
*
2396060 AAGGTTAGGTAAATGTTCTTAAAT-ATTAAAGAATACATATATTTTAT
1 AAGGTTAGGTAAATATT-TTAAATCA-TAAAGAATACATATATTTTAT
* *
2396107 AAGGTTAGGTAAATATTCTTAAATCTTAAATAATACATATATTTTAT
1 AAGGTTAGGTAAATATT-TTAAATCATAAAGAATACATATATTTTAT
* *
2396154 AAGGTTAGGTAAATATTCTTAAATCTTAAATAATACATATATTTTAT
1 AAGGTTAGGTAAATATT-TTAAATCATAAAGAATACATATATTTTAT
*
2396201 AAGGTTAGGTAAATAATTTAAA
1 AAGGTTAGGTAAATATTTTAAA
2396223 ATAGGACGGC
Statistics
Matches: 197, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
46 8 0.04
47 185 0.94
48 4 0.02
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (46 bp):
AAGGTTAGGTAAATATTTTAAATCATAAAGAATACATATATTTTAT
Found at i:2405276 original size:14 final size:15
Alignment explanation
Indices: 2405243--2405288 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
2405233 TTTTCTTCGA
*
2405243 TATTGAAAAATAAA-
1 TATTTAAAAATAAAT
*
2405257 TA-TT-AAAATAATT
1 TATTTAAAAATAAAT
2405270 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
2405285 TATT
1 TATT
2405289 ATTTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 4 0.15
15 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:2406183 original size:15 final size:14
Alignment explanation
Indices: 2406159--2406200 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
2406149 ACAGAGTAAG
*
2406159 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
2406174 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
2406188 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
2406201 GCTGTGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:2406191 original size:20 final size:20
Alignment explanation
Indices: 2406159--2406200 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2406149 ACAGAGTAAG
*
2406159 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
2406179 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
2406199 TT
1 TT
2406201 GCTGTGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:2406687 original size:3 final size:3
Alignment explanation
Indices: 2406675--2406754 Score: 108
Period size: 3 Copynumber: 27.0 Consensus size: 3
2406665 TATATATATT
* * *
2406675 TAA T-A TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2406722 TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2406755 ATAAATTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:2407057 original size:36 final size:36
Alignment explanation
Indices: 2407005--2407094 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 36
2406995 TTGAACAAGC
* * *
2407005 TCTTTTCATTGTGAACTTCTTCATT-TTCAGATTAGT
1 TCTTCTCATTATGAACTTCTTC-TTCTTCAGATGAGT
2407041 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
2407077 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
2407095 TCTCTGGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
35 2 0.04
36 48 0.96
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
Found at i:2407366 original size:113 final size:112
Alignment explanation
Indices: 2407040--2407804 Score: 981
Period size: 113 Copynumber: 6.8 Consensus size: 112
2407030 TTCAGATTAG
* *
2407040 TTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGCACTG
* *
2407101 GAAAAGCTGATCTATCAAGTGATGGATTTGAAC-AAAAGATTGAAAAAA
66 GAAAAGCTGATCTATCAAGTGAT-GATTTGAGCAAAAAG-TTGAACAAA
* *
2407149 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTGTGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TGC
* * * * * ** *
2407214 -CTGGGAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAA
62 ACTGGAAAAGCTGATCTATCAAGTGATG-ATTTGAGCAAAAAGTTGAACAAA
* *
2407265 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGCACTG
* * *
2407330 GAAAAGCGGATCCATCAAGTGATGTATTTGAGC-AAAAGATTGAATAAA
66 GAAAAGCTGATCTATCAAGTGATG-ATTTGAGCAAAAAG-TTGAACAAA
* * * *
2407378 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTA
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGCACTG
* * * * * *
2407443 AAAAAGCTGGTCCATCAAGTGATGGATTTGGGCAAAAGGTTGAATAAA
66 GAAAAGCTGATCTATCAAGTGAT-GATTTGAGCAAAAAGTTGAACAAA
* *
2407491 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGCACTG
*
2407556 GAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAAGTTGAACAAA
66 GAAAAGCTGATCTATCAAGTGAT-GATTTGAGCAAAAAGTTGAACAAA
* * *
2407604 TTCTTCTCATTATGAAC-T-TTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGCACTG
* *
2407667 GAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCTATCAAGTGAT-GATTTGAGCAAAAAGTTGAACAAA
* * * *
2407715 TTCTTCTCATTATGAATTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGCACTG
*
2407780 GAAAAGCTAATCTATCAAGTGATGA
66 GAAAAGCTGATCTATCAAGTGATGA
2407805 ATTTAAATTT
Statistics
Matches: 594, Mismatches: 46, Indels: 29
0.89 0.07 0.04
Matches are distributed among these distances:
109 16 0.03
111 107 0.18
112 17 0.03
113 349 0.59
114 5 0.01
115 1 0.00
116 92 0.15
117 7 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (112 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGCACTG
GAAAAGCTGATCTATCAAGTGATGATTTGAGCAAAAAGTTGAACAAA
Found at i:2408931 original size:84 final size:83
Alignment explanation
Indices: 2408534--2408929 Score: 675
Period size: 83 Copynumber: 4.7 Consensus size: 83
2408524 GGTTTTATAT
*
2408534 CAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
*
2408599 TTCAATGACTGGTTTTAC
66 TTCAATGACTGGTTCTAC
2408617 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
*
2408682 TTCAATGACTGGTTTTAC
66 TTCAATGACTGGTTCTAC
2408700 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
* *
2408765 TTCAATGATTGGTTCTGC
66 TTCAATGACTGGTTCTAC
* *
2408783 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTCCA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTCAA
* *
2408848 ATTCAATGATTGGTTCTGC
65 ATTCAATGACTGGTTCTAC
* *
2408867 CAAACCAGATCAGATAACTCAAAGAACACGTCCAGAAGATGCTATTGGGCACATTCATCTTTC
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTC
2408930 CAGCTAATGT
Statistics
Matches: 305, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
83 206 0.68
84 99 0.32
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
TTCAATGACTGGTTCTAC
Found at i:2420790 original size:24 final size:21
Alignment explanation
Indices: 2420745--2420811 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
2420735 AAATAAAATG
* *
2420745 AAATAT-TAATAATATATATAT
1 AAATATATAAAAAAATAT-TAT
2420766 AAATACTATAAAAATAATATGTAT
1 AAATA-TATAAAAA-AATAT-TAT
2420790 --ATATATAAAAAAA-ATTAT
1 AAATATATAAAAAAATATTAT
2420808 AAAT
1 AAAT
2420812 TAAATATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
18 3 0.08
19 2 0.05
20 4 0.11
21 13 0.34
22 4 0.11
23 5 0.13
24 7 0.18
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (21 bp):
AAATATATAAAAAAATATTAT
Found at i:2421466 original size:14 final size:15
Alignment explanation
Indices: 2421433--2421478 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
2421423 TTTTCTTCGA
*
2421433 TATTGAAAAATAAA-
1 TATTTAAAAATAAAT
*
2421447 TA-TT-AAAATAATT
1 TATTTAAAAATAAAT
2421460 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
2421475 TATT
1 TATT
2421479 ATTTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 4 0.15
15 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:2422375 original size:15 final size:14
Alignment explanation
Indices: 2422351--2422392 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
2422341 ACAGAGTAAG
*
2422351 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
2422366 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
2422380 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
2422393 GTTGTGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:2422383 original size:20 final size:20
Alignment explanation
Indices: 2422351--2422392 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2422341 ACAGAGTAAG
*
2422351 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
2422371 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
2422391 TT
1 TT
2422393 GTTGTGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:2422482 original size:20 final size:20
Alignment explanation
Indices: 2422439--2422482 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2422429 GTATCTTTTT
* *
2422439 TCTCTGTTTTTCTCTCTGTC
1 TCTCTGTTGTTCTCTCTCTC
*
2422459 TCTCTGTTGTTCTCTGTCTC
1 TCTCTGTTGTTCTCTCTCTC
2422479 TCTC
1 TCTC
2422483 CGGTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.32, G:0.11, T:0.57
Consensus pattern (20 bp):
TCTCTGTTGTTCTCTCTCTC
Found at i:2422897 original size:3 final size:3
Alignment explanation
Indices: 2422885--2422965 Score: 110
Period size: 3 Copynumber: 26.7 Consensus size: 3
2422875 TATATATATT
* *
2422885 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2422932 TAA TAA TAA TAAA TAA TTA TAA TAA TAA TTAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA -TAA TA
2422966 TGGGTAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.03
3 61 0.88
4 6 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2424038 original size:41 final size:41
Alignment explanation
Indices: 2423976--2424073 Score: 178
Period size: 41 Copynumber: 2.4 Consensus size: 41
2423966 GCCTTGATTA
*
2423976 AATTAAATTGGATTGTGAACTAGTACATGCTACCATGATCT
1 AATTGAATTGGATTGTGAACTAGTACATGCTACCATGATCT
2424017 AATTGAATTGGATTGTGAACTAGTACATGCTACCATGATCT
1 AATTGAATTGGATTGTGAACTAGTACATGCTACCATGATCT
*
2424058 AATTGAATTGGTTTGT
1 AATTGAATTGGATTGT
2424074 CAATAAATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (41 bp):
AATTGAATTGGATTGTGAACTAGTACATGCTACCATGATCT
Found at i:2426297 original size:18 final size:18
Alignment explanation
Indices: 2426274--2426322 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
2426264 GTTACTGAGG
*
2426274 GATTCCTGACGTGACAGA
1 GATTCCTGACGTGACAAA
2426292 GATTCCTGACGTGACAAA
1 GATTCCTGACGTGACAAA
2426310 GATTCCTGACGTG
1 GATTCCTGACGTG
2426323 GAAGCAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (18 bp):
GATTCCTGACGTGACAAA
Found at i:2435344 original size:18 final size:18
Alignment explanation
Indices: 2435321--2435356 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2435311 CAGTAGTGGT
*
2435321 CTCTGAACCTGTTGCTGC
1 CTCTGAACCTGCTGCTGC
*
2435339 CTCTGACCCTGCTGCTGC
1 CTCTGAACCTGCTGCTGC
2435357 TGGTGCTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.39, G:0.22, T:0.31
Consensus pattern (18 bp):
CTCTGAACCTGCTGCTGC
Found at i:2440230 original size:22 final size:23
Alignment explanation
Indices: 2440205--2440257 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
2440195 ATTATAATGT
2440205 ATGAACAATACCATAAACAGTA-
1 ATGAACAATACCATAAACAGTAC
* *
2440227 ATGAACAATACCGTAAATAGTACC
1 ATGAACAATACCATAAACAGTA-C
2440251 ATGAACA
1 ATGAACA
2440258 GTGCCGATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 20 0.74
24 7 0.26
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.19
Consensus pattern (23 bp):
ATGAACAATACCATAAACAGTAC
Found at i:2441232 original size:32 final size:31
Alignment explanation
Indices: 2441039--2441231 Score: 266
Period size: 31 Copynumber: 6.2 Consensus size: 31
2441029 GCTTGTATAA
*
2441039 TAATCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTGTCCATATGTCCTGAAGAACATAGG
2441070 TAATCTGTCCATATGT-CTCGAAGAACATAGG
1 TAATCTGTCCATATGTCCT-GAAGAACATAGG
* *
2441101 TAATCTGTCCATATATCCTGAAGAACATAAG
1 TAATCTGTCCATATGTCCTGAAGAACATAGG
*
2441132 TAAACTGTCCATATGTCCTGAAGAACATAGG
1 TAATCTGTCCATATGTCCTGAAGAACATAGG
*
2441163 TAATCCTGTCCATATGTCCCGTAAG-ACATAGG
1 TAAT-CTGTCCATATGTCCTG-AAGAACATAGG
*
2441195 TAATCCTGTCCATATGTCTTGGAAG-ACATAGG
1 TAAT-CTGTCCATATGTCCT-GAAGAACATAGG
2441227 TAATC
1 TAATC
2441232 CCTCGACTCT
Statistics
Matches: 147, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.01
31 86 0.59
32 56 0.38
33 4 0.03
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (31 bp):
TAATCTGTCCATATGTCCTGAAGAACATAGG
Found at i:2442210 original size:23 final size:23
Alignment explanation
Indices: 2442184--2442241 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
2442174 TGTTTAACGT
2442184 AGGTATCGGTACACCCATAACTG
1 AGGTATCGGTACACCCATAACTG
* *
2442207 AGGTATCAGTACACCCCTAACTG
1 AGGTATCGGTACACCCATAACTG
2442230 AGGTATCGGTAC
1 AGGTATCGGTAC
2442242 CCTTCTTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
AGGTATCGGTACACCCATAACTG
Found at i:2447490 original size:26 final size:26
Alignment explanation
Indices: 2447454--2447520 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 26
2447444 ACATTCGAAC
2447454 TCAAGGTGTCGAAGCGACCCATGAAA
1 TCAAGGTGTCGAAGCGACCCATGAAA
2447480 TCAAGGTGTCGAGGCGAAGCGACCCATGAAA
1 TCAAGGTGT-----CGAAGCGACCCATGAAA
2447511 TCAAGGTGTC
1 TCAAGGTGTC
2447521 AATCGACGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
26 10 0.28
31 26 0.72
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.16
Consensus pattern (26 bp):
TCAAGGTGTCGAAGCGACCCATGAAA
Found at i:2452017 original size:37 final size:37
Alignment explanation
Indices: 2451944--2452018 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
2451934 GTTGGAAAAT
* *
2451944 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
2451981 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
2452018 A
1 A
2452019 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:2458466 original size:20 final size:20
Alignment explanation
Indices: 2458429--2458467 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2458419 AACCCCTTAG
*
2458429 TATCGATACCCTATGAACAA
1 TATCGATACCCTAAGAACAA
2458449 TATCGATACCAC-AAGAACA
1 TATCGATACC-CTAAGAACA
2458468 TGATACCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.21
Consensus pattern (20 bp):
TATCGATACCCTAAGAACAA
Found at i:2465894 original size:51 final size:51
Alignment explanation
Indices: 2465814--2465919 Score: 176
Period size: 51 Copynumber: 2.1 Consensus size: 51
2465804 AGATTTTTGA
*
2465814 ACATCTTAACATAGTTAGGTTGCACGAGGTATATGTTGTTTTAAGTATTGT
1 ACATCTTAACATAGTTAGGTTACACGAGGTATATGTTGTTTTAAGTATTGT
* * *
2465865 ACATCTTAACATAGTTAGGTTACATGAGGTATGTGTTGTTTTAATTATTGT
1 ACATCTTAACATAGTTAGGTTACACGAGGTATATGTTGTTTTAAGTATTGT
2465916 ACAT
1 ACAT
2465920 TGTACTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.42
Consensus pattern (51 bp):
ACATCTTAACATAGTTAGGTTACACGAGGTATATGTTGTTTTAAGTATTGT
Found at i:2466030 original size:2 final size:2
Alignment explanation
Indices: 2466025--2466062 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2466015 TATATTGTTA
2466025 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
2466063 TATTCTTGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2467402 original size:43 final size:43
Alignment explanation
Indices: 2467305--2467427 Score: 223
Period size: 42 Copynumber: 2.9 Consensus size: 43
2467295 TAAGTGTTTC
2467305 AAACAAGATACAAACTTGGAATTTAAGACAAGAAAC-TGTCTA
1 AAACAAGATACAAACTTGGAATTTAAGACAAGAAACATGTCTA
*
2467347 AAACAAGATACAAACTCGGAATTTAAGACAAGAAACATGTCTA
1 AAACAAGATACAAACTTGGAATTTAAGACAAGAAACATGTCTA
2467390 AAACAAGATAC-AACTTGGAATTTAAGACAAGAAACATG
1 AAACAAGATACAAACTTGGAATTTAAGACAAGAAACATG
2467428 AGCGATTAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
42 61 0.78
43 17 0.22
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (43 bp):
AAACAAGATACAAACTTGGAATTTAAGACAAGAAACATGTCTA
Found at i:2469259 original size:19 final size:18
Alignment explanation
Indices: 2469211--2469249 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2469201 AATGCTAAAG
* *
2469211 TTTTAAAAATATTTAATT
1 TTTTTAAAATAATTAATT
2469229 TTTTTAAAATAATTAATT
1 TTTTTAAAATAATTAATT
2469247 TTT
1 TTT
2469250 AATTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTAAAATAATTAATT
Found at i:2469581 original size:11 final size:10
Alignment explanation
Indices: 2469554--2469584 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
2469544 GAAAATTAAT
2469554 TATTTTAAAA
1 TATTTTAAAA
2469564 TATTTTAAAA
1 TATTTTAAAA
2469574 TAATTTTAAAA
1 T-ATTTTAAAA
2469585 CTTTACCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.55
11 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:2470730 original size:18 final size:18
Alignment explanation
Indices: 2470707--2470743 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2470697 CAGCCCACTG
2470707 CCCATTTAAATTTTAAAA
1 CCCATTTAAATTTTAAAA
2470725 CCCATTTAAATTTTAAAA
1 CCCATTTAAATTTTAAAA
2470743 C
1 C
2470744 TAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (18 bp):
CCCATTTAAATTTTAAAA
Found at i:2475599 original size:128 final size:128
Alignment explanation
Indices: 2475371--2475629 Score: 464
Period size: 128 Copynumber: 2.0 Consensus size: 128
2475361 CGAGTCCGAG
* * *
2475371 ATGTCACATTGACTTTTTAAAACGATGTTCTTACAAGATAACAAAACATTTGAACTCAATTTAAG
1 ATGTCACATTGACTTTTTAAAACAATGTTCTTACAAAATAACAAAACATTTAAACTCAATTTAAG
* *
2475436 AAAATACAATAATATTCTATTATATTATGCTTCATTATAAAAATTCAAGTAAAAAATGTATTT
66 AAAATACAATAATATTATATTATATTATGCTTCATTATAAAAATTCAAGTAAAAAACGTATTT
2475499 ATGTCACATTGACTTTTTAAAACAATGTTCTTACAAAATAACAAAACATTTAAACTCAATTTAAG
1 ATGTCACATTGACTTTTTAAAACAATGTTCTTACAAAATAACAAAACATTTAAACTCAATTTAAG
*
2475564 AAAATACAATAATATTATATTATATTATGCTTCATTATAAAAATTCAAGTCAAAAACGTATTT
66 AAAATACAATAATATTATATTATATTATGCTTCATTATAAAAATTCAAGTAAAAAACGTATTT
2475627 ATG
1 ATG
2475630 AACATTACTA
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (128 bp):
ATGTCACATTGACTTTTTAAAACAATGTTCTTACAAAATAACAAAACATTTAAACTCAATTTAAG
AAAATACAATAATATTATATTATATTATGCTTCATTATAAAAATTCAAGTAAAAAACGTATTT
Found at i:2476232 original size:17 final size:18
Alignment explanation
Indices: 2476192--2476242 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
2476182 TAACAATACT
*
2476192 TATCAGTAATCATATTAC
1 TATCATTAATCATATTAC
2476210 TATCATTAATTCAT-TTA-
1 TATCATTAA-TCATATTAC
*
2476227 TATCATGTAAGCATAT
1 TATCAT-TAATCATAT
2476243 ACTGATCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 9 0.32
18 15 0.54
19 4 0.14
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (18 bp):
TATCATTAATCATATTAC
Found at i:2476492 original size:31 final size:31
Alignment explanation
Indices: 2476457--2476535 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
2476447 CATAGATTCT
*
2476457 GAAGAACCTAGGTAAACAATCCATATGTCCC
1 GAAGAACATAGGTAAACAATCCATATGTCCC
2476488 GAAGAACATAGGTAAACAATCCATATGTCCC
1 GAAGAACATAGGTAAACAATCCATATGTCCC
2476519 GAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
2476536 CCTCGACCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.18
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAATCCATATGTCCC
Found at i:2477779 original size:3 final size:3
Alignment explanation
Indices: 2477771--2477801 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2477761 TCTCGTACAT
*
2477771 GAA GAA GAA GAA GAA GAA GAA GAA GAT GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
2477802 TGAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:2522031 original size:84 final size:85
Alignment explanation
Indices: 2521887--2522064 Score: 322
Period size: 84 Copynumber: 2.1 Consensus size: 85
2521877 TACCTAGGTT
* *
2521887 AAAGAATCCCAAAATGAAGCTCTTTTAACTAGCTATCACTCTTCTCCAAGACTTGGATGGCAATC
1 AAAGAACCCCAAAATAAAGCTCTTTTAACTAGCTATCACTCTTCTCCAAGACTTGGATGGCAATC
*
2521952 CTCCACTTTTTCTTGCAAAC
66 CCCCACTTTTTCTTGCAAAC
2521972 AAAGAACCCCAAAATAAAGCTCTTTTAACTA-CTATCACTCTTCTCCAAGACTTGGATGGCAATC
1 AAAGAACCCCAAAATAAAGCTCTTTTAACTAGCTATCACTCTTCTCCAAGACTTGGATGGCAATC
2522036 CCCCACTTTTTCTTGCAAAC
66 CCCCACTTTTTCTTGCAAAC
2522056 AAAGAACCC
1 AAAGAACCC
2522065 AAGGCTTTAA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
84 61 0.68
85 29 0.32
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.28
Consensus pattern (85 bp):
AAAGAACCCCAAAATAAAGCTCTTTTAACTAGCTATCACTCTTCTCCAAGACTTGGATGGCAATC
CCCCACTTTTTCTTGCAAAC
Found at i:2522196 original size:18 final size:18
Alignment explanation
Indices: 2522172--2522217 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
2522162 GGGAGGAAGA
2522172 ATGGAGAAGAAATG-AAT
1 ATGGAGAAGAAATGAAAT
*
2522189 GGTGGAGAAG-AATGAAAT
1 -ATGGAGAAGAAATGAAAT
2522207 ATGGAGAAGAA
1 ATGGAGAAGAA
2522218 GATGGAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (18 bp):
ATGGAGAAGAAATGAAAT
Found at i:2522658 original size:12 final size:14
Alignment explanation
Indices: 2522627--2522667 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
2522617 TCACTTTTAG
2522627 ATTTTTAAAAATAT
1 ATTTTTAAAAATAT
2522641 ATTTTTAAATAATAT
1 ATTTTTAAA-AATAT
*
2522656 TTTATTTAAAAA
1 ATT-TTTAAAAA
2522668 ATTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 9 0.38
15 9 0.38
16 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTTTTAAAAATAT
Found at i:2529506 original size:18 final size:20
Alignment explanation
Indices: 2529447--2529527 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 20
2529437 TCAAATATAT
* *
2529447 TTCAAAACTTTCATTTTCAGA
1 TTCATAACTTT-AATTTCAGA
*
2529468 TTCATAAC--T--TTTCAAA
1 TTCATAACTTTAATTTCAGA
*
2529484 TTCATAA-TTT-ATTTTAGA
1 TTCATAACTTTAATTTCAGA
*
2529502 TTCATAACTTTAATTTCATA
1 TTCATAACTTTAATTTCAGA
2529522 TTCATA
1 TTCATA
2529528 GCCCATTGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
16 13 0.27
17 1 0.02
18 12 0.24
19 4 0.08
20 12 0.24
21 7 0.14
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (20 bp):
TTCATAACTTTAATTTCAGA
Found at i:2531367 original size:19 final size:20
Alignment explanation
Indices: 2531343--2531387 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2531333 CCAAATGATC
*
2531343 CAATTTC-ACATTCTAACAT
1 CAATTTCAACACTCTAACAT
2531362 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
2531382 TAATTT
1 CAATTT
2531388 TCAGTATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:2535586 original size:26 final size:25
Alignment explanation
Indices: 2535506--2535586 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
2535496 TATTTACACT
*
2535506 TATATATGAATCATATCAATTTAAAC
1 TATATATGAATTATATCAA-TTAAAC
* * * *
2535532 TATA-ATAAATTCAAAT-AATTATTAT
1 TATATATGAATT-ATATCAATTA-AAC
2535557 TATATATGAATTATATCAACTTAAAC
1 TATATATGAATTATATCAA-TTAAAC
2535583 TATA
1 TATA
2535587 AATATATAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
24 3 0.07
25 15 0.37
26 20 0.49
27 3 0.07
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (25 bp):
TATATATGAATTATATCAATTAAAC
Found at i:2535708 original size:20 final size:20
Alignment explanation
Indices: 2535659--2535708 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
2535649 TCATAATTTT
2535659 TTATTTTT-AAATAATTAAA
1 TTATTTTTAAAATAATTAAA
* *
2535678 TAAATTATTAAAAGTAA-TAAA
1 T-TATTTTTAAAA-TAATTAAA
2535699 TTATTTTTAA
1 TTATTTTTAA
2535709 GGATGTTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 8 0.33
22 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTATTTTTAAAATAATTAAA
Found at i:2543453 original size:31 final size:31
Alignment explanation
Indices: 2543418--2543492 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
2543408 TTCACCGTCC
* *
2543418 AAGTGACCAAAACCTAATAAAACAATAATGT
1 AAGTGACCAAAACATAATAAAACAATAACGT
2543449 AAGTGACCAAAACATAATAAAACAATAACGT
1 AAGTGACCAAAACATAATAAAACAATAACGT
*
2543480 AAGTGACTAAAAC
1 AAGTGACCAAAAC
2543493 TTATATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.56, C:0.16, G:0.11, T:0.17
Consensus pattern (31 bp):
AAGTGACCAAAACATAATAAAACAATAACGT
Found at i:2546537 original size:19 final size:19
Alignment explanation
Indices: 2546481--2546538 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
2546471 TCACGTAGAA
*
2546481 TTTT-TTAATTTTTTTATA
1 TTTTATTAATTTTTTTATT
*
2546499 TTTTATTTATTTTTTTATT
1 TTTTATTAATTTTTTTATT
* *
2546518 TTTTATTAATTATTTAATT
1 TTTTATTAATTTTTTTATT
2546537 TT
1 TT
2546539 GCATTCTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 4 0.12
19 30 0.88
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTAATTTTTTTATT
Found at i:2551385 original size:34 final size:33
Alignment explanation
Indices: 2551343--2551413 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
2551333 AATAGTAATA
*
2551343 AACAAAATTAAGAAAAATAAATTAACAA-AAAGTCC
1 AACAAATTTAA-AAAAATAAATTAA-AATAAA-TCC
*
2551378 AACAAATTTAACAAAATAAATTAAAATAAATCC
1 AACAAATTTAAAAAAATAAATTAAAATAAATCC
2551411 AAC
1 AAC
2551414 CATATTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 8 0.24
34 15 0.45
35 10 0.30
ACGTcount: A:0.65, C:0.13, G:0.03, T:0.20
Consensus pattern (33 bp):
AACAAATTTAAAAAAATAAATTAAAATAAATCC
Found at i:2551481 original size:13 final size:12
Alignment explanation
Indices: 2551453--2551498 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
2551443 TGATAAATAA
*
2551453 AAAAATTACAAT
1 AAAAAGTACAAT
*
2551465 AAAAAGTCCAAT
1 AAAAAGTACAAT
*
2551477 GAAAAACTACAAT
1 -AAAAAGTACAAT
2551490 AAAAAGTAC
1 AAAAAGTAC
2551499 TAAATATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.63, C:0.13, G:0.07, T:0.17
Consensus pattern (12 bp):
AAAAAGTACAAT
Found at i:2553722 original size:9 final size:9
Alignment explanation
Indices: 2553708--2553741 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2553698 TAAGTAAAAT
2553708 ATTAAATAA
1 ATTAAATAA
2553717 ATTAAA-AA
1 ATTAAATAA
*
2553725 CTTAAATAA
1 ATTAAATAA
2553734 ATTAAATA
1 ATTAAATA
2553742 CAAAATAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAATAA
Found at i:2553801 original size:10 final size:10
Alignment explanation
Indices: 2553788--2553827 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
2553778 AGAGATTATA
*
2553788 AGAGTATTTG
1 AGAGAATTTG
*
2553798 AGAGAAGTTG
1 AGAGAATTTG
*
2553808 AGAGAAATTG
1 AGAGAATTTG
2553818 AGAGAATTTG
1 AGAGAATTTG
2553828 GTGTGATGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.28
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:2558157 original size:20 final size:20
Alignment explanation
Indices: 2558132--2558177 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2558122 TTGTGGGTAC
* *
2558132 CGATACTGACCCTTCAGTAT
1 CGATACTAAACCTTCAGTAT
**
2558152 CGATACTAAACCTTTGGTAT
1 CGATACTAAACCTTCAGTAT
2558172 CGATAC
1 CGATAC
2558178 CCCCATACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (20 bp):
CGATACTAAACCTTCAGTAT
Found at i:2564555 original size:29 final size:28
Alignment explanation
Indices: 2564522--2564615 Score: 125
Period size: 29 Copynumber: 3.3 Consensus size: 28
2564512 ACATGACAGT
** *
2564522 GATATAATTTCATAAAGAATCAGGATTGG
1 GATATAATTTCATGCAGAATCAGGA-CGG
*
2564551 GATATAATTTCATGCTGAATCAGGACGG
1 GATATAATTTCATGCAGAATCAGGACGG
*
2564579 AGATATAATCTCATGCAGAATCAGGACGG
1 -GATATAATTTCATGCAGAATCAGGACGG
2564608 GATATAAT
1 GATATAAT
2564616 CCCATGGAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
28 10 0.17
29 48 0.83
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (28 bp):
GATATAATTTCATGCAGAATCAGGACGG
Found at i:2565487 original size:20 final size:20
Alignment explanation
Indices: 2565462--2565502 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2565452 AGACAGAGAT
* *
2565462 AAACATGTCATAAAGGCATA
1 AAACATGTCACAAAGACATA
2565482 AAACATGTCACAAAGACATA
1 AAACATGTCACAAAGACATA
2565502 A
1 A
2565503 CTATTCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.17, G:0.12, T:0.17
Consensus pattern (20 bp):
AAACATGTCACAAAGACATA
Found at i:2567606 original size:28 final size:28
Alignment explanation
Indices: 2567575--2567631 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
2567565 GATCAAAATA
2567575 AAAATTTCTCATCGACAATATCT-TTAAT
1 AAAATTTCTCATCGACAATAT-TATTAAT
*
2567603 AAAATTTCTTATCGACAATATTATTAAT
1 AAAATTTCTCATCGACAATATTATTAAT
2567631 A
1 A
2567632 TTTAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (28 bp):
AAAATTTCTCATCGACAATATTATTAAT
Found at i:2570491 original size:32 final size:32
Alignment explanation
Indices: 2570450--2570513 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
2570440 ATTGGAGAGG
*
2570450 CTTCTCTT-GGGAGAAATTAATCCACTTGAAGA
1 CTTCTCTTGGGGA-AAATTAATCCACCTGAAGA
*
2570482 CTTCTCTTGGGGAAAATTAATCTACCTGAAGA
1 CTTCTCTTGGGGAAAATTAATCCACCTGAAGA
2570514 GATTGTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (32 bp):
CTTCTCTTGGGGAAAATTAATCCACCTGAAGA
Found at i:2574005 original size:6 final size:6
Alignment explanation
Indices: 2573988--2574016 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2573978 TTGTTAAGAA
2573988 CTCGAG -TCGAG CTCGAG CTCGAG CTCGAG
1 CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG
2574017 TCAAGTGCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.17
Consensus pattern (6 bp):
CTCGAG
Found at i:2574168 original size:40 final size:40
Alignment explanation
Indices: 2574113--2574209 Score: 169
Period size: 40 Copynumber: 2.4 Consensus size: 40
2574103 CTATTCACAC
*
2574113 CATTTGTGATGCATGCTGGCTTAATATTTTCTTTTAAT-A
1 CATTTGTCATGCATGCTGGCTTAATATTTTCTTTTAATGA
2574152 GCATTTGTCATGCATGCTGGCTTAATATTTTCTTTTAATGA
1 -CATTTGTCATGCATGCTGGCTTAATATTTTCTTTTAATGA
2574193 CATTTGTCATGCATGCT
1 CATTTGTCATGCATGCT
2574210 TACCTTCTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
40 54 0.98
41 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.46
Consensus pattern (40 bp):
CATTTGTCATGCATGCTGGCTTAATATTTTCTTTTAATGA
Found at i:2575539 original size:8 final size:9
Alignment explanation
Indices: 2575509--2575540 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
2575499 CTGTCACACC
2575509 ATTAAAA-T
1 ATTAAAATT
2575517 ATTAAAATT
1 ATTAAAATT
2575526 ATTAAAATT
1 ATTAAAATT
2575535 A-TAAAA
1 ATTAAAA
2575541 AGTTGATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 12 0.52
9 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
ATTAAAATT
Found at i:2577051 original size:29 final size:29
Alignment explanation
Indices: 2577005--2577075 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
2576995 AAGATCTCAA
* ** *
2577005 ACAGAAACAAGACAGAGATATATTCCCAT
1 ACAGAATCAAGATGGAGATATAATCCCAT
** *
2577034 GTAGAATCAAGATGGAGATTTAATCCCAT
1 ACAGAATCAAGATGGAGATATAATCCCAT
2577063 ACAGAATCAAGAT
1 ACAGAATCAAGAT
2577076 TGCATCAGTA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (29 bp):
ACAGAATCAAGATGGAGATATAATCCCAT
Found at i:2577663 original size:13 final size:13
Alignment explanation
Indices: 2577633--2577674 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2577623 GTTTTTGGAA
*
2577633 AAAGTCAATTGCTC
1 AAAGTCAA-TGGTC
2577647 AAAGTCAATGGTC
1 AAAGTCAATGGTC
*
2577660 AAAGTCAGTGGTC
1 AAAGTCAATGGTC
2577673 AA
1 AA
2577675 CAATCAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 18 0.69
14 8 0.31
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (13 bp):
AAAGTCAATGGTC
Found at i:2593803 original size:277 final size:278
Alignment explanation
Indices: 2593272--2593823 Score: 1031
Period size: 277 Copynumber: 2.0 Consensus size: 278
2593262 AAAATCATTT
2593272 TGGGCAGAAGCAATCAATACTGCCTTAGCTCCATCAACTGCAATAGGCTGAAGACACCAATAGAG
1 TGGGCAGAAGCAATCAATACTGCCTTAGCTCCATCAACTGCAATAGGCTGAAGACACCAATAGAG
2593337 ATGTGGACTGGTAAACCAGTGATTAATCAAACCTCCATGTATTTGGAAGTATTGTGTACGTGATG
66 ATGTGGACTGGTAAACCAGTGATTAATCAAACCTCCATGTATTTGGAAGTATTGTGTACGTGATG
2593402 TACAACTCCCAAGAAATTTCAAAGTTGGATCCAAAAATCCAAGAAATACAAATTCTTGGGGTATG
131 TACAACTCCCAAGAAATTTCAAAGTTGGATCCAAAAATCCAAGAAATACAAATTCTTGGGGTATG
2593467 TGATGGTGTAAAGGGGTGTATCGTTTGTGGGATCCCACTGCCCGCAAAGTGATCATCAGCAGGGA
196 TGATGGTGTAAAGGGGTGTATCGTTTGTGGGATCCCACTGCCCGCAAAGTGATCATCAGCAGGGA
2593532 TGTTATC-TTGTAGATAA
261 TGTTATCTTTGTAGATAA
**
2593549 TGGGCAGAAGCAATCAATACTGTGTTAGCTCCATCAACTGCAATAGAGCTGAAGACACCAATAGA
1 TGGGCAGAAGCAATCAATACTGCCTTAGCTCCATCAACTGCAATAG-GCTGAAGACACCAATAGA
2593614 GATGTGGACTGGTAAACCAGTTGATTAATCAAACCTCCATGTATTTGGAAGTATTGTGTACGTGA
65 GATGTGGACTGGTAAACCAG-TGATTAATCAAACCTCCATGTATTTGGAAGTATTGTGTACGTGA
2593679 TGTACAACTCCCAAGAAATTTCAAAGTTGGATCC-AAAATCCAAGAAATACAAATTCTTGGGGTA
129 TGTACAACTCCCAAGAAATTTCAAAGTTGGATCCAAAAATCCAAGAAATACAAATTCTTGGGGTA
2593743 TGTTGATGGTGTAAA-GGG-GTATCGTTTGTGGGATCCCACTGCCCGCAAAGTGATCATCAGCAG
194 TG-TGATGGTGTAAAGGGGTGTATCGTTTGTGGGATCCCACTGCCCGCAAAGTGATCATCAGCAG
2593806 GGATGTTATCTTTGTAGA
258 GGATGTTATCTTTGTAGA
2593824 AGATAAGCCA
Statistics
Matches: 269, Mismatches: 2, Indels: 7
0.97 0.01 0.03
Matches are distributed among these distances:
277 99 0.37
278 80 0.30
279 90 0.33
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (278 bp):
TGGGCAGAAGCAATCAATACTGCCTTAGCTCCATCAACTGCAATAGGCTGAAGACACCAATAGAG
ATGTGGACTGGTAAACCAGTGATTAATCAAACCTCCATGTATTTGGAAGTATTGTGTACGTGATG
TACAACTCCCAAGAAATTTCAAAGTTGGATCCAAAAATCCAAGAAATACAAATTCTTGGGGTATG
TGATGGTGTAAAGGGGTGTATCGTTTGTGGGATCCCACTGCCCGCAAAGTGATCATCAGCAGGGA
TGTTATCTTTGTAGATAA
Found at i:2597667 original size:30 final size:30
Alignment explanation
Indices: 2597619--2597715 Score: 83
Period size: 30 Copynumber: 3.1 Consensus size: 30
2597609 TCCTAATTTT
* *
2597619 AATTATTAGTATT-TTATTAACATAATATTA
1 AATTATTACTATTAATATTAA-ATAATATTA
*
2597649 AATTATTA-TATTAATATTAAATGTATAAATTA
1 AATTATTACTATTAATATTAAA--TA-ATATTA
*
2597681 ATATTATTCACTATTAA-ATTTAATAATATTA
1 A-ATTATT-ACTATTAATATTAAATAATATTA
2597712 AATT
1 AATT
2597716 TTAAAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
29 5 0.09
30 17 0.30
31 8 0.14
32 8 0.14
33 6 0.11
34 6 0.11
35 6 0.11
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (30 bp):
AATTATTACTATTAATATTAAATAATATTA
Found at i:2597680 original size:19 final size:19
Alignment explanation
Indices: 2597632--2597686 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
2597622 TATTAGTATT
2597632 TTATTAACA-TAATATTAAA
1 TTATTAA-ATTAATATTAAA
*
2597651 TTATTATATTAATATTAAA
1 TTATTAAATTAATATTAAA
2597670 TGTA-TAAATTAATATTA
1 T-TATTAAATTAATATTA
2597687 TTCACTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 1 0.03
19 29 0.91
20 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
TTATTAAATTAATATTAAA
Found at i:2597719 original size:22 final size:21
Alignment explanation
Indices: 2597640--2597720 Score: 60
Period size: 22 Copynumber: 3.9 Consensus size: 21
2597630 TTTTATTAAC
2597640 ATAATATTAAATTATT--A-TA
1 ATAATATTAAATT-TTAAATTA
* *
2597659 TTAATATTAAATGTATAAATTA
1 ATAATATTAAAT-TTTAAATTA
* * * *
2597681 ATATTATTCACTATTAAATTTA
1 ATAATATTAAATTTTAAA-TTA
2597703 ATAATATTAAATTTTAAA
1 ATAATATTAAATTTTAAA
2597721 AAAAATAGAT
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
19 12 0.27
20 1 0.02
21 5 0.11
22 27 0.60
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (21 bp):
ATAATATTAAATTTTAAATTA
Found at i:2597779 original size:25 final size:25
Alignment explanation
Indices: 2597729--2597787 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
2597719 AAAAAAATAG
* *
2597729 ATAATAT-TT-AATTAAAATTTATT
1 ATAATATATTAAATTAAAATATAAT
2597752 ATACAT-TATTAAATTAAAATATAAT
1 ATA-ATATATTAAATTAAAATATAAT
2597777 ATAATATATTA
1 ATAATATATTA
2597788 TTATAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 4 0.13
24 6 0.20
25 20 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
ATAATATATTAAATTAAAATATAAT
Found at i:2598046 original size:18 final size:18
Alignment explanation
Indices: 2598015--2598049 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2598005 ACAAAGGAAC
**
2598015 TAGGAAAATGAATTACAT
1 TAGGAAAACCAATTACAT
2598033 TAGGAAAACCAATTACA
1 TAGGAAAACCAATTACA
2598050 ACTATCAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.23
Consensus pattern (18 bp):
TAGGAAAACCAATTACAT
Found at i:2598082 original size:14 final size:14
Alignment explanation
Indices: 2598063--2598090 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2598053 ATCAAATACT
2598063 GAAAAATATTTTTC
1 GAAAAATATTTTTC
2598077 GAAAAATATTTTTC
1 GAAAAATATTTTTC
2598091 AACTATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
GAAAAATATTTTTC
Found at i:2598155 original size:15 final size:15
Alignment explanation
Indices: 2598135--2598164 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2598125 TGCGGCTATC
2598135 AAACACATCCTTATA
1 AAACACATCCTTATA
2598150 AAACACATCCTTATA
1 AAACACATCCTTATA
2598165 GAGGATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (15 bp):
AAACACATCCTTATA
Found at i:2609559 original size:16 final size:16
Alignment explanation
Indices: 2609538--2609568 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2609528 GTTTCAGATT
2609538 CAGATTCCAATTCCTA
1 CAGATTCCAATTCCTA
*
2609554 CAGATTCTAATTCCT
1 CAGATTCCAATTCCT
2609569 TAAAAGATTC
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:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (16 bp):
CAGATTCCAATTCCTA
Found at i:2609693 original size:22 final size:22
Alignment explanation
Indices: 2609662--2609713 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
2609652 CATATAGTCA
*
2609662 TAAATATTCAA-TATTTTATTAAT
1 TAAAT-TTCAATTAATTT-TTAAT
*
2609685 TTAATTTCAATTAATTTTTAAT
1 TAAATTTCAATTAATTTTTAAT
2609707 TAAATTT
1 TAAATTT
2609714 AATCATTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TAAATTTCAATTAATTTTTAAT
Found at i:2610337 original size:2 final size:2
Alignment explanation
Indices: 2610330--2610371 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2610320 CAAAGCAACG
2610330 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
2610372 TAAAAATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2621164 original size:2 final size:2
Alignment explanation
Indices: 2621157--2621220 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
2621147 TCAATCTACA
2621157 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
2621199 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
2621221 CCGAAATACA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2621362 original size:85 final size:84
Alignment explanation
Indices: 2621273--2621571 Score: 492
Period size: 85 Copynumber: 3.5 Consensus size: 84
2621263 AATGATGTGT
* * * *
2621273 GCTTCAATGACACGCAATGTAAGTCATATATGCGTGTCATAAATTTATGACACACAAATGTATGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
*
2621338 CAAGC-AGATTTATGACGGGG
66 C-ATCTA-ATTTATGACGGGG
2621358 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
2621423 CATCTTAATTTATGACGGGG
66 CATC-TAATTTATGACGGGG
*
2621443 GCTTCAATGACGCACAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
2621508 CATCTTAATTTATGACGGGG
66 CATC-TAATTTATGACGGGG
*
2621528 GCTTCAATGACGCGCAATGTAAGTCATACATGCGCGTCATAAAT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAAT
2621572 GCGCGTCATA
Statistics
Matches: 204, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
84 2 0.01
85 201 0.99
86 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (84 bp):
GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
CATCTAATTTATGACGGGG
Found at i:2621568 original size:13 final size:13
Alignment explanation
Indices: 2621550--2621581 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2621540 CGCAATGTAA
*
2621550 GTCATACATGCGC
1 GTCATAAATGCGC
2621563 GTCATAAATGCGC
1 GTCATAAATGCGC
2621576 GTCATA
1 GTCATA
2621582 GATTTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:2630325 original size:22 final size:22
Alignment explanation
Indices: 2630299--2630357 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
2630289 ACAGAATAAA
2630299 TGCAAGAGTTACAAAGCTTTAC
1 TGCAAGAGTTACAAAGCTTTAC
* *
2630321 TGCAAGAGTTACAAAGTTTTAT
1 TGCAAGAGTTACAAAGCTTTAC
*
2630343 TGCATGAGTTACAAA
1 TGCAAGAGTTACAAA
2630358 CGACTGATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.31
Consensus pattern (22 bp):
TGCAAGAGTTACAAAGCTTTAC
Done.