Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 75 of 78
Found at i:15894209 original size:15 final size:15
Alignment explanation
Indices: 15894174--15894202 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15894164 CTGCTTCAAC
15894174 TTCTTT-CTTTTCTT
1 TTCTTTGCTTTTCTT
15894188 TTCTTTGCTTTTCTT
1 TTCTTTGCTTTTCTT
15894203 CTTTTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TTCTTTGCTTTTCTT
Found at i:15898046 original size:91 final size:91
Alignment explanation
Indices: 15897866--15898032 Score: 219
Period size: 91 Copynumber: 1.8 Consensus size: 91
15897856 CCTAGAACAC
* *
15897866 CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCTTGCATGTGGATCATTTAGGCACCAAGATG
1 CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCTTGCATATGGATCATTTAGGCACAAAGATG
**
15897931 AAGAGTTATCTCCCTATTCAGCCAAG
66 AAGAGCCATCTCCCTATTCAGCCAAG
** * * * * *
15897957 CCATGTGTTTTGCATGTGATCAGCCCCCATGTGCCTTGCATATTGTTCATTTAGGCGCAAAGATG
1 CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCTTGCATATGGATCATTTAGGCACAAAGATG
15898022 AATG-GCCATCT
66 AA-GAGCCATCT
15898033 ATCCATTCGG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
91 63 0.98
92 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (91 bp):
CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCTTGCATATGGATCATTTAGGCACAAAGATG
AAGAGCCATCTCCCTATTCAGCCAAG
Found at i:15913952 original size:2 final size:2
Alignment explanation
Indices: 15913941--15913974 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15913931 TAAATATAGG
15913941 TA TA -A 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 TA TA TA T
15913975 GAAAATAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15916380 original size:15 final size:15
Alignment explanation
Indices: 15916360--15916395 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15916350 ATTATTAGCT
*
15916360 TTATAATATATGTTA
1 TTATAATATATATTA
15916375 TTATAATATATATTA
1 TTATAATATATATTA
*
15916390 TGATAA
1 TTATAA
15916396 GAATATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
TTATAATATATATTA
Found at i:15918041 original size:18 final size:19
Alignment explanation
Indices: 15918003--15918041 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15917993 AAGAAAAAAG
*
15918003 AAGCACTCAAAAAGATTGA
1 AAGCACTCAAAAAGATAGA
15918022 AAGCACTCAAAAAGA-AGA
1 AAGCACTCAAAAAGATAGA
15918040 AA
1 AA
15918042 AAGAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.10
Consensus pattern (19 bp):
AAGCACTCAAAAAGATAGA
Found at i:15920642 original size:15 final size:15
Alignment explanation
Indices: 15920622--15920657 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15920612 ATTATTAGCT
*
15920622 TTATAATATATGTTA
1 TTATAATATATATTA
15920637 TTATAATATATATTA
1 TTATAATATATATTA
*
15920652 TGATAA
1 TTATAA
15920658 GAATATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
TTATAATATATATTA
Found at i:15922763 original size:36 final size:36
Alignment explanation
Indices: 15922723--15922827 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
15922713 GATACAATCT
*
15922723 GTCCATCACCATTATCACGCTTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
15922759 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
15922795 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
15922828 ACTTATAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 20 0.31
36 45 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:15922767 original size:13 final size:11
Alignment explanation
Indices: 15922745--15922810 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 11
15922735 TATCACGCTT
15922745 ATATCATCACC
1 ATATCATCACC
15922756 ATAGTCCATCACC
1 ATA-T-CATCACC
*
15922769 ATTATCA-CGCC
1 A-TATCATCACC
15922780 TATATCATCACC
1 -ATATCATCACC
15922792 ATATTCCATCACC
1 ATA-T-CATCACC
15922805 ATATCA
1 ATATCA
15922811 CGCCCATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
11 16 0.35
12 9 0.20
13 19 0.41
14 2 0.04
ACGTcount: A:0.33, C:0.35, G:0.03, T:0.29
Consensus pattern (11 bp):
ATATCATCACC
Found at i:15930984 original size:16 final size:16
Alignment explanation
Indices: 15930959--15930996 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15930949 AATGGAGGGC
*
15930959 CATGGCCGAATGGATA
1 CATGGTCGAATGGATA
*
15930975 CATGGTCGAATTGATA
1 CATGGTCGAATGGATA
15930991 CATGGT
1 CATGGT
15930997 GGTTCGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (16 bp):
CATGGTCGAATGGATA
Found at i:15932802 original size:19 final size:20
Alignment explanation
Indices: 15932778--15932828 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
15932768 CGGCCAAGAG
* *
15932778 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
15932797 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
15932817 CATGTATTTTCA
1 CATGTATTTTCA
15932829 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:15933587 original size:34 final size:31
Alignment explanation
Indices: 15933544--15933615 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 31
15933534 GTACAAAAAG
15933544 AAAGAAAAGACA-AAAAGAAAAAGAGAATTCATAA
1 AAAGAAAAGA-AGAAAAGAAAAAGA-AATTC--AA
15933578 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
1 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
15933609 AAAGAAA
1 AAAGAAA
15933616 GCAAGCCAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 9 0.24
33 6 0.16
34 22 0.59
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.07
Consensus pattern (31 bp):
AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
Found at i:15936973 original size:19 final size:20
Alignment explanation
Indices: 15936949--15936999 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
15936939 CGGCCAAGAG
* *
15936949 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
15936968 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
15936988 CATGTATTTTCA
1 CATGTATTTTCA
15937000 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:15937753 original size:34 final size:31
Alignment explanation
Indices: 15937710--15937781 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 31
15937700 GTACAAAAAG
15937710 AAAGAAAAGACA-AAAAGAAAAAGAGAATTCATAA
1 AAAGAAAAGA-AGAAAAGAAAAAGA-AATTC--AA
15937744 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
1 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
15937775 AAAGAAA
1 AAAGAAA
15937782 GCAAGCCAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 9 0.24
33 6 0.16
34 22 0.59
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.07
Consensus pattern (31 bp):
AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
Found at i:15941139 original size:19 final size:20
Alignment explanation
Indices: 15941115--15941165 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
15941105 CGGCCAAGAG
* *
15941115 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
15941134 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
15941154 CATGTATTTTCA
1 CATGTATTTTCA
15941166 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:15946561 original size:15 final size:15
Alignment explanation
Indices: 15946525--15946554 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15946515 GTGCTTCAAC
15946525 TTTCTTT-CTTTTCT
1 TTTCTTTGCTTTTCT
15946539 TTTCTTTGCTTTTCT
1 TTTCTTTGCTTTTCT
15946554 T
1 T
15946555 CTTTTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTCTTTGCTTTTCT
Found at i:15946577 original size:27 final size:28
Alignment explanation
Indices: 15946547--15946608 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
15946537 CTTTTCTTTG
* *
15946547 CTTTTCTTCTTTTTGAATGC-TGAATTT
1 CTTTTCTTCTTTTGGAATGCTTCAATTT
*
15946574 C-TTTCTTTCTTTTGGAGTGCTTCAATTT
1 CTTTTC-TTCTTTTGGAATGCTTCAATTT
15946602 CTTTTCT
1 CTTTTCT
15946609 GATTTTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 13 0.45
28 8 0.28
29 4 0.14
ACGTcount: A:0.11, C:0.18, G:0.11, T:0.60
Consensus pattern (28 bp):
CTTTTCTTCTTTTGGAATGCTTCAATTT
Found at i:15950446 original size:5 final size:5
Alignment explanation
Indices: 15950408--15950453 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
15950398 ACTTGGTTCA
15950408 CTTTT CTTTT GCTTTT GCTTTT CTTCTT -TTTT CTTTT C-TTT CTTTT
1 CTTTT CTTTT -CTTTT -CTTTT CTT-TT CTTTT CTTTT CTTTT CTTTT
15950454 GCACTCCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 6 0.16
5 18 0.49
6 13 0.35
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (5 bp):
CTTTT
Found at i:15950508 original size:19 final size:20
Alignment explanation
Indices: 15950479--15950522 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
15950469 TGTAGGAGTC
*
15950479 TTTTTCTTTTCTCTTTTG-TT
1 TTTTTCTTTTCT-TGTTGCTT
15950499 TTTTTC-TTTCTTGTTGCTT
1 TTTTTCTTTTCTTGTTGCTT
15950518 TTTTT
1 TTTTT
15950523 TTTGTTGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 12 0.55
20 6 0.27
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTTCTTTTCTTGTTGCTT
Found at i:15956237 original size:30 final size:28
Alignment explanation
Indices: 15956171--15956237 Score: 66
Period size: 30 Copynumber: 2.3 Consensus size: 28
15956161 ATGAGCTTAA
15956171 GAAAACATGCATGAGCTAGAAAAGAGAT
1 GAAAACATGCATGAGCTAGAAAAGAGAT
* *
15956199 GCATACATGCAAATGAGCTA-ATAAATGA-AT
1 GAAAACATGC--ATGAGCTAGA-AAA-GAGAT
15956229 GAAAACATG
1 GAAAACATG
15956238 TTGCCAAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
28 8 0.26
29 1 0.03
30 20 0.65
31 2 0.06
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.18
Consensus pattern (28 bp):
GAAAACATGCATGAGCTAGAAAAGAGAT
Found at i:15958241 original size:24 final size:24
Alignment explanation
Indices: 15958214--15958259 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15958204 ATCAGAAAAC
* *
15958214 AATTTGAAGCACTCCAAAAGAAGA
1 AATTTCAAGCACTCAAAAAGAAGA
*
15958238 AATTTCCAGCACTCAAAAAGAA
1 AATTTCAAGCACTCAAAAAGAA
15958260 AAAAAACAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.20, G:0.13, T:0.17
Consensus pattern (24 bp):
AATTTCAAGCACTCAAAAAGAAGA
Found at i:15959525 original size:24 final size:24
Alignment explanation
Indices: 15959498--15959549 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
15959488 GACATGTCCT
* * *
15959498 TTGACGTTCCAACAGTTATGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
* *
15959522 TTGATGTTCAAAAAGATGTGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
15959546 TTGA
1 TTGA
15959550 AGTGCCAAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (24 bp):
TTGACGTTCAAAAAGATATGCCAC
Found at i:15962197 original size:30 final size:31
Alignment explanation
Indices: 15962145--15962204 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
15962135 CTTAGCTTTA
**
15962145 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
15962175 TATTATGTTTTCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
15962205 GGAAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:15963138 original size:19 final size:20
Alignment explanation
Indices: 15963114--15963164 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
15963104 CGGGCAAGAG
* *
15963114 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
15963133 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
15963153 CATGTATTTTCA
1 CATGTATTTTCA
15963165 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:15963603 original size:19 final size:20
Alignment explanation
Indices: 15963579--15963618 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
15963569 TATCCCATCC
15963579 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
15963598 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
15963618 T
1 T
15963619 ATTATTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:15967076 original size:19 final size:20
Alignment explanation
Indices: 15967013--15967084 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
15967003 GAAACCCCTT
15967013 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGA-TTTTAAA
15967034 TGAAAATACATGATTTTAAA
1 TGAAAATACATGATTTTAAA
15967054 TGAAAATACATGATTTT-AA
1 TGAAAATACATGATTTTAAA
*
15967073 TGAAGATACATG
1 TGAAAATACATG
15967085 CTCTTGGCCG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 13 0.26
20 24 0.48
21 13 0.26
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:15968009 original size:30 final size:31
Alignment explanation
Indices: 15967968--15968027 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
15967958 ACATGTTTCC
**
15967968 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
15967999 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
15968028 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:15970497 original size:15 final size:15
Alignment explanation
Indices: 15970461--15970490 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15970451 GTGCTTCAAC
15970461 TTTCTTT-CTTTTCT
1 TTTCTTTGCTTTTCT
15970475 TTTCTTTGCTTTTCT
1 TTTCTTTGCTTTTCT
15970490 T
1 T
15970491 CTTTTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTCTTTGCTTTTCT
Found at i:15970513 original size:27 final size:28
Alignment explanation
Indices: 15970483--15970544 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
15970473 CTTTTCTTTG
* *
15970483 CTTTTCTTCTTTTTGAATGC-TGAATTT
1 CTTTTCTTCTTTTGGAATGCTTCAATTT
*
15970510 C-TTTCTTTCTTTTGGAGTGCTTCAATTT
1 CTTTTC-TTCTTTTGGAATGCTTCAATTT
15970538 CTTTTCT
1 CTTTTCT
15970545 GATTTTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 13 0.45
28 8 0.28
29 4 0.14
ACGTcount: A:0.11, C:0.18, G:0.11, T:0.60
Consensus pattern (28 bp):
CTTTTCTTCTTTTGGAATGCTTCAATTT
Found at i:15973387 original size:19 final size:21
Alignment explanation
Indices: 15973344--15973395 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
15973334 GAAACCCCTT
15973344 TGAAAATACATGAATTTTAAA
1 TGAAAATACATGAATTTTAAA
15973365 TGAAAATACATG-ATTTT-AA
1 TGAAAATACATGAATTTTAAA
*
15973384 TGAAGATACATG
1 TGAAAATACATG
15973396 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 5 0.17
21 12 0.40
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGAATTTTAAA
Found at i:15975444 original size:13 final size:11
Alignment explanation
Indices: 15975403--15975487 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
15975393 ACAATCTGTC
15975403 CATCACCATTAT
1 CATCACCA-TAT
*
15975415 CA-CGCCTATAT
1 CATCACC-ATAT
15975426 CATCACCATAGT
1 CATCACCATA-T
15975438 CCATCACCATTAT
1 -CATCACCA-TAT
*
15975451 CA-CGCCTATAT
1 CATCACC-ATAT
15975462 CATCACCATATT
1 CATCACCATA-T
15975474 CCATCACCATAT
1 -CATCACCATAT
15975486 CA
1 CA
15975488 CGCCCATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:15975447 original size:36 final size:36
Alignment explanation
Indices: 15975400--15975504 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
15975390 GATACAATCT
15975400 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
15975436 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
15975472 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
15975505 ACTTATAAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 20 0.30
36 46 0.70
ACGTcount: A:0.30, C:0.37, G:0.05, T:0.28
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:15975964 original size:14 final size:15
Alignment explanation
Indices: 15975941--15975981 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
15975931 TTTGGAGTGC
15975941 AAAAGAAAGAA-AAGA
1 AAAAGAAAGAATAA-A
15975956 AAAAG-AAGAATAAA
1 AAAAGAAAGAATAAA
15975970 AAAAGCAAAGAA
1 AAAAG-AAAGAA
15975982 AAAGTGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 11 0.48
15 7 0.30
16 5 0.22
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (15 bp):
AAAAGAAAGAATAAA
Found at i:15977340 original size:34 final size:33
Alignment explanation
Indices: 15977296--15977364 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
15977286 ATACAATCTG
*
15977296 TCCATCACCATTATCA-CGCCAATAACATCATCCT
1 TCCATCACCATT-TCATCACCAATAA-ATCATCCT
* *
15977330 TCCATTACCATTTCATCACCATTAAATCATCCT
1 TCCATCACCATTTCATCACCAATAAATCATCCT
15977363 TC
1 TC
15977365 ATTCATCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.30, C:0.36, G:0.01, T:0.32
Consensus pattern (33 bp):
TCCATCACCATTTCATCACCAATAAATCATCCT
Found at i:15985563 original size:36 final size:36
Alignment explanation
Indices: 15985516--15985620 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
15985506 GATACAATCT
15985516 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
15985552 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * * *
15985588 TTCAATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
15985621 ACTTATAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 20 0.31
36 45 0.69
ACGTcount: A:0.31, C:0.36, G:0.05, T:0.28
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:15986428 original size:20 final size:19
Alignment explanation
Indices: 15986391--15986429 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
15986381 AAGTAAAAAT
**
15986391 GTGAAAACATATGTTATGC
1 GTGAAAACATATAATATGC
15986410 GTGAAAATCATATAATATGC
1 GTGAAAA-CATATAATATGC
15986430 AAGTGAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (19 bp):
GTGAAAACATATAATATGC
Found at i:16003897 original size:109 final size:108
Alignment explanation
Indices: 16003689--16003902 Score: 310
Period size: 109 Copynumber: 2.0 Consensus size: 108
16003679 TGATACCAAT
* *
16003689 TGATAGGGAAGTGGTGGTGGATTGATTAACGTTGCTCTTGTTGAAGAATCAAACCTAGAAAAGAT
1 TGATAGGGAAGCGGTGGCGGATTGATTAACGTTGCTCTTGTTGAAGAATCAAACCTAGAAAAGAT
**
16003754 CTAGACTTTATGAAGAACAATAAGGGATGAATGGGGAAGGTAAC
66 CTAGACTCGATGAAGAACAATAAGGGATGAAT-GGGAAGGTAAC
*
16003798 TGATAGGGAAGCGGTGGCGGATTGATGT-ACGTTGCTCTTGTTGAAGAATCAAACCTAG-AAAGC
1 TGATAGGGAAGCGGTGGCGGATTGAT-TAACGTTGCTCTTGTTGAAGAATCAAACCTAGAAAAGA
16003861 TCTAGACTCGATGAAGAAC-A-AAGGTGATGAATATGGGAAGGT
65 TCTAGACTCGATGAAGAACAATAAGG-GATG-A-ATGGGAAGGT
16003903 GGCGGTAGTC
Statistics
Matches: 96, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
106 4 0.04
107 5 0.05
108 30 0.31
109 56 0.58
110 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (108 bp):
TGATAGGGAAGCGGTGGCGGATTGATTAACGTTGCTCTTGTTGAAGAATCAAACCTAGAAAAGAT
CTAGACTCGATGAAGAACAATAAGGGATGAATGGGAAGGTAAC
Found at i:16005816 original size:12 final size:12
Alignment explanation
Indices: 16005799--16005827 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16005789 AAATTTTGGC
16005799 TTTTTTGGCTTT
1 TTTTTTGGCTTT
16005811 TTTTTTGGCTTT
1 TTTTTTGGCTTT
16005823 TTTTT
1 TTTTT
16005828 GTTTTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.14, T:0.79
Consensus pattern (12 bp):
TTTTTTGGCTTT
Found at i:16005832 original size:9 final size:9
Alignment explanation
Indices: 16005809--16005846 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
16005799 TTTTTTGGCT
16005809 TTTTTTTTGG
1 TTTTTTTT-G
16005819 CTTTTTTTTG
1 -TTTTTTTTG
16005829 TTTTTTTTG
1 TTTTTTTTG
16005838 TTTTTTTTG
1 TTTTTTTTG
16005847 AAAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 18 0.67
10 1 0.04
11 8 0.30
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:16007174 original size:23 final size:21
Alignment explanation
Indices: 16007141--16007182 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
16007131 TTGGTGTTGG
*
16007141 AAATAATATAAGAAATAAGATTA
1 AAATAAGATAA-AAA-AAGATTA
16007164 AAATAAGATAAAAAAAGAT
1 AAATAAGATAAAAAAAGAT
16007183 AAAGGAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (21 bp):
AAATAAGATAAAAAAAGATTA
Found at i:16008384 original size:23 final size:24
Alignment explanation
Indices: 16008355--16008401 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
16008345 GAAATAAGAG
16008355 TCAAAAGAAAATA-AAAAAGAAGT
1 TCAAAAGAAAATACAAAAAGAAGT
16008378 TCAAAAGAAAATACAAAAAGAAGT
1 TCAAAAGAAAATACAAAAAGAAGT
16008402 ACATTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.68, C:0.06, G:0.13, T:0.13
Consensus pattern (24 bp):
TCAAAAGAAAATACAAAAAGAAGT
Found at i:16016978 original size:11 final size:13
Alignment explanation
Indices: 16016946--16016975 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16016936 TGGCCAAAGA
16016946 TGAAAAGGTATGT
1 TGAAAAGGTATGT
16016959 TGAAAAGGTATG-
1 TGAAAAGGTATGT
16016971 TGAAA
1 TGAAA
16016976 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:16018241 original size:19 final size:20
Alignment explanation
Indices: 16018200--16018250 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
16018190 GAAACGCCTT
*
16018200 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
16018220 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
16018239 TGAAGATACATG
1 TGAAAATACATG
16018251 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:16021637 original size:19 final size:19
Alignment explanation
Indices: 16021613--16021691 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 19
16021603 CTTGGCTTGC
16021613 TTTCTTTTTTGAATTTCTT
1 TTTCTTTTTTGAATTTCTT
16021632 TTTC--TTTT--A-TTC-T
1 TTTCTTTTTTGAATTTCTT
16021645 TTTCTTTTTCTGAATTTTCTT
1 TTTCTTTTT-TGAA-TTTCTT
* * *
16021666 CTTC-TTTTTGTATTT-TC
1 TTTCTTTTTTGAATTTCTT
16021683 TTTCTTTTT
1 TTTCTTTTT
16021692 GTACTCCAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 19
0.67 0.06 0.27
Matches are distributed among these distances:
13 5 0.11
14 3 0.06
15 4 0.09
16 1 0.02
17 8 0.17
18 8 0.17
19 7 0.15
20 7 0.15
21 4 0.09
ACGTcount: A:0.08, C:0.14, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTCTTTTTTGAATTTCTT
Found at i:16021664 original size:20 final size:19
Alignment explanation
Indices: 16021613--16021691 Score: 66
Period size: 18 Copynumber: 4.5 Consensus size: 19
16021603 CTTGGCTTGC
16021613 TTTCTTTTTTGAA-TTTCT
1 TTTCTTTTTTGAATTTTCT
*
16021631 TTT-TCTTTT--A--TTCT
1 TTTCTTTTTTGAATTTTCT
16021645 TTTCTTTTTCTGAATTTTCT
1 TTTCTTTTT-TGAATTTTCT
*
16021665 TCTTC-TTTTTGTATTTTC-
1 T-TTCTTTTTTGAATTTTCT
16021683 TTTCTTTTT
1 TTTCTTTTT
16021692 GTACTCCAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
14 7 0.14
15 5 0.10
16 1 0.02
17 8 0.16
18 9 0.18
19 8 0.16
20 9 0.18
21 3 0.06
ACGTcount: A:0.08, C:0.14, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTCTTTTTTGAATTTTCT
Found at i:16021682 original size:34 final size:32
Alignment explanation
Indices: 16021613--16021685 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 32
16021603 CTTGGCTTGC
* *
16021613 TTTCTTTTTTGAATTTCTTTTTCTTTTATTCT
1 TTTCTTTTTTGAATTTCTTCTTCTTTTATTAT
16021645 TTTCTTTTTCTGAATTTTCTTCTTCTTTT-TGTAT
1 TTTCTTTTT-TGAA-TTTCTTCTTCTTTTAT-TAT
16021679 TTTCTTT
1 TTTCTTT
16021686 CTTTTTGTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 9 0.25
33 5 0.14
34 22 0.61
ACGTcount: A:0.08, C:0.14, G:0.04, T:0.74
Consensus pattern (32 bp):
TTTCTTTTTTGAATTTCTTCTTCTTTTATTAT
Found at i:16023376 original size:30 final size:31
Alignment explanation
Indices: 16023336--16023395 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
16023326 ACATGCTGCC
**
16023336 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
16023367 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
16023396 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:16032788 original size:163 final size:160
Alignment explanation
Indices: 16032519--16032849 Score: 538
Period size: 163 Copynumber: 2.0 Consensus size: 160
16032509 TCAAGAGTAC
*
16032519 TCCCTTTATAGATGTAAACGTGCTTGCATCATCCCCCTTCTTTAGGGAGATTTGTCCTCAAATCG
1 TCCCTTTATAGATGAAAACGTGCTTGCATCATCCCCCTTCTTTAGGGAGATTTGTCCTCAAATCG
* * *
16032584 AGTTCATTCTGTTCTTGCATAGCTTTACGTCTCTTTGCTAAAAGAAAGTATCCTTTGACCGTTTG
66 AGTTCATTCTGTTCTTGCATAGATTTACGTCTCTTTGCT-AAA-AAAGTATCCTTTGAACGTTTA
*
16032649 TGTTCTTCCATTAGGTACCCTTTCATAAGATT
129 TGTTATTCCATTAGGTACCCTTTCATAAGATT
* *
16032681 TCCCTTTATAGATGAAAACGTGTTTGCATCATCCCCCCTTCTTTTGGGCA-ATTTGTCCTCAAAT
1 TCCCTTTATAGATGAAAACGTGCTTGCATCAT-CCCCCTTCTTTAGGG-AGATTTGTCCTCAAAT
*
16032745 CGAGTTCATTCTGTTCTTGCATAGATTTACGTCTCTTTGCTAAAAAAGTATCCTTTGAATGTTTA
64 CGAGTTCATTCTGTTCTTGCATAGATTTACGTCTCTTTGCTAAAAAAGTATCCTTTGAACGTTTA
*
16032810 TGTTATTCCATTAGGTACCCTTTCGTAAGATT
129 TGTTATTCCATTAGGTACCCTTTCATAAGATT
16032842 TCCCTTTA
1 TCCCTTTA
16032850 GGCCTTTCTT
Statistics
Matches: 158, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
161 56 0.35
162 33 0.21
163 68 0.43
164 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (160 bp):
TCCCTTTATAGATGAAAACGTGCTTGCATCATCCCCCTTCTTTAGGGAGATTTGTCCTCAAATCG
AGTTCATTCTGTTCTTGCATAGATTTACGTCTCTTTGCTAAAAAAGTATCCTTTGAACGTTTATG
TTATTCCATTAGGTACCCTTTCATAAGATT
Found at i:16034368 original size:15 final size:17
Alignment explanation
Indices: 16034345--16034378 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16034335 TTAAGATATG
16034345 TTTAGTTTATTA-TTAT
1 TTTAGTTTATTAGTTAT
16034361 TTTA-TTTATTAGTTAT
1 TTTAGTTTATTAGTTAT
16034377 TT
1 TT
16034379 AGGACCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTAGTTTATTAGTTAT
Found at i:16034787 original size:22 final size:23
Alignment explanation
Indices: 16034762--16034807 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
16034752 TTGCAATTCC
16034762 TTAATC-T-TTTCTTTATCTTGTT
1 TTAATCTTATTTC-TTATCTTGTT
16034784 TTAATCTTATTTCTTATCTTGTT
1 TTAATCTTATTTCTTATCTTGTT
16034807 T
1 T
16034808 CCAGCACCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.67
Consensus pattern (23 bp):
TTAATCTTATTTCTTATCTTGTT
Found at i:16035153 original size:12 final size:12
Alignment explanation
Indices: 16035136--16035182 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
16035126 TCTTTTTTTC
16035136 AAAAACAAAACA
1 AAAAACAAAACA
16035148 AAAAACAAAACA
1 AAAAACAAAACA
*
16035160 AAAAAGGCAACA-A
1 AAAAA--CAAAACA
16035173 AAAAACAAAA
1 AAAAACAAAA
16035183 AAGCCAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 4 0.13
12 17 0.55
13 6 0.19
14 4 0.13
ACGTcount: A:0.81, C:0.15, G:0.04, T:0.00
Consensus pattern (12 bp):
AAAAACAAAACA
Found at i:16039521 original size:22 final size:23
Alignment explanation
Indices: 16039496--16039541 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
16039486 TTACAATTCC
16039496 TTAATC-T-TTTCTTTATCTTGTT
1 TTAATCTTATTTC-TTATCTTGTT
16039518 TTAATCTTATTTCTTATCTTGTT
1 TTAATCTTATTTCTTATCTTGTT
16039541 T
1 T
16039542 CCAACACCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.67
Consensus pattern (23 bp):
TTAATCTTATTTCTTATCTTGTT
Found at i:16041085 original size:27 final size:28
Alignment explanation
Indices: 16041055--16041107 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
16041045 TTTGCTTATC
* *
16041055 TTCTTTTTGAATGC-TGAATTTCTTTCT
1 TTCTTTTGGAATGCTTCAATTTCTTTCT
*
16041082 TTCTTTTGGAGTGCTTCAATTTCTTT
1 TTCTTTTGGAATGCTTCAATTTCTTT
16041108 TCTGATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.58
Consensus pattern (28 bp):
TTCTTTTGGAATGCTTCAATTTCTTTCT
Found at i:16043537 original size:36 final size:36
Alignment explanation
Indices: 16043497--16043606 Score: 170
Period size: 35 Copynumber: 3.1 Consensus size: 36
16043487 AGATACTACA
16043497 TATAACATCACCATCTTCTATCACCATTTTCACGCC
1 TATAACATCACCATCTTCTATCACCATTTTCACGCC
* * *
16043533 TATAACATCACCATCTTCCATTACC-TTTGCACGCC
1 TATAACATCACCATCTTCTATCACCATTTTCACGCC
*
16043568 TATATCATCACCATCTTCTATCACCA-TTTCACGCC
1 TATAACATCACCATCTTCTATCACCATTTTCACGCC
16043603 TATA
1 TATA
16043607 TAACCACAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
35 43 0.65
36 23 0.35
ACGTcount: A:0.27, C:0.35, G:0.04, T:0.34
Consensus pattern (36 bp):
TATAACATCACCATCTTCTATCACCATTTTCACGCC
Found at i:16051568 original size:33 final size:33
Alignment explanation
Indices: 16051526--16051594 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
16051516 GTTGATGAAT
*
16051526 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
16051559 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
16051592 GAA
1 GAA
16051595 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:16051599 original size:13 final size:12
Alignment explanation
Indices: 16051580--16051676 Score: 62
Period size: 13 Copynumber: 8.0 Consensus size: 12
16051570 TTATTGGCGT
16051580 GATATGGTGATG
1 GATATGGTGATG
16051592 GAATATGGTGAT-
1 G-ATATGGTGATG
*
16051604 GATATAGGCG-T-
1 GATAT-GGTGATG
16051615 GATAATGGTGATG
1 GAT-ATGGTGATG
16051628 GACTATGGTGAT-
1 GA-TATGGTGATG
*
16051640 GATATAGGCG-T-
1 GATAT-GGTGATG
*
16051651 GATAATGGAGATG
1 GAT-ATGGTGATG
16051664 GATTATGGTGATG
1 GA-TATGGTGATG
16051677 AAAATAGTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
11 21 0.30
12 16 0.23
13 30 0.43
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:16051635 original size:36 final size:36
Alignment explanation
Indices: 16051565--16051677 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
16051555 AATGGAAGGA
* *
16051565 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
*
16051600 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
16051636 TGATGATATAGGCGTGATAATGGAGATGGATTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
16051672 TGATGA
1 TGATGA
16051678 AAATAGTATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 16 0.22
36 56 0.78
ACGTcount: A:0.27, C:0.04, G:0.36, T:0.33
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Found at i:16057304 original size:33 final size:33
Alignment explanation
Indices: 16057262--16057330 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
16057252 GTTGATGAAT
*
16057262 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
16057295 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
16057328 GAA
1 GAA
16057331 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:16057335 original size:13 final size:12
Alignment explanation
Indices: 16057316--16057412 Score: 62
Period size: 13 Copynumber: 8.0 Consensus size: 12
16057306 TTATTGGCGT
16057316 GATATGGTGATG
1 GATATGGTGATG
16057328 GAATATGGTGAT-
1 G-ATATGGTGATG
*
16057340 GATATAGGCG-T-
1 GATAT-GGTGATG
16057351 GATAATGGTGATG
1 GAT-ATGGTGATG
16057364 GACTATGGTGAT-
1 GA-TATGGTGATG
*
16057376 GATATAGGCG-T-
1 GATAT-GGTGATG
*
16057387 GATAATGGAGATG
1 GAT-ATGGTGATG
16057400 GATTATGGTGATG
1 GA-TATGGTGATG
16057413 AAAATAGTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
11 21 0.30
12 16 0.23
13 30 0.43
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:16057371 original size:36 final size:36
Alignment explanation
Indices: 16057301--16057413 Score: 174
Period size: 36 Copynumber: 3.2 Consensus size: 36
16057291 AATGGAAGGA
* *
16057301 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
*
16057336 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
* *
16057372 TGATGATATAGGCGTGATAATGGAGATGGATTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGAATATGG
16057408 TGATGA
1 TGATGA
16057414 AAATAGTATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
35 16 0.22
36 56 0.78
ACGTcount: A:0.27, C:0.04, G:0.36, T:0.33
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGAATATGG
Found at i:16059424 original size:28 final size:27
Alignment explanation
Indices: 16059393--16059445 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
16059383 GAAAATCAGA
* *
16059393 AAAGAAATTGAAGCACTCCAAAAGAAAG
1 AAAGAAAATCAAGCACT-CAAAAGAAAG
*
16059421 AAAGAAAATCCAGCACTCAAAAGAA
1 AAAGAAAATCAAGCACTCAAAAGAA
16059446 GATAAAGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.09
Consensus pattern (27 bp):
AAAGAAAATCAAGCACTCAAAAGAAAG
Found at i:16059467 original size:15 final size:16
Alignment explanation
Indices: 16059444--16059476 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16059434 CACTCAAAAG
*
16059444 AAGATAAAGCAAAGAA
1 AAGATAAAGAAAAGAA
16059460 AAGA-AAAGAAAAGAA
1 AAGATAAAGAAAAGAA
16059475 AA
1 AA
16059477 AAGTTGAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (16 bp):
AAGATAAAGAAAAGAA
Found at i:16065999 original size:13 final size:11
Alignment explanation
Indices: 16065955--16066039 Score: 57
Period size: 11 Copynumber: 7.2 Consensus size: 11
16065945 ACAATCTGTC
16065955 CATCACCATCAT
1 CATCACCAT-AT
*
16065967 CA-CGCCTATAT
1 CATCACC-ATAT
*
16065978 CATCGCCATAGT
1 CATCACCATA-T
16065990 CCATCACCATTAT
1 -CATCACCA-TAT
*
16066003 CA-CGCCTATAT
1 CATCACC-ATAT
16066014 CATCACCATATT
1 CATCACCATA-T
16066026 CCATCACCATAT
1 -CATCACCATAT
16066038 CA
1 CA
16066040 CGCATATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 23 0.38
12 17 0.28
13 18 0.30
14 2 0.03
ACGTcount: A:0.31, C:0.38, G:0.05, T:0.27
Consensus pattern (11 bp):
CATCACCATAT
Found at i:16065999 original size:36 final size:35
Alignment explanation
Indices: 16065952--16066056 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 35
16065942 GATACAATCT
*
16065952 GTCCATCACCATCATCACGCCTATATCATCGCCATA
1 GTCCATCACCAT-ATCACGCCTATATCATCACCATA
16065988 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCA-TATCACGCCTATATCATCACCATA
* * *
16066024 TTCCATCACCATATCACGCATATATTATCACCA
1 GTCCATCACCATATCACGCCTATATCATCACCA
16066057 ACTTATAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 20 0.31
36 43 0.67
37 1 0.02
ACGTcount: A:0.30, C:0.36, G:0.06, T:0.28
Consensus pattern (35 bp):
GTCCATCACCATATCACGCCTATATCATCACCATA
Found at i:16070944 original size:13 final size:11
Alignment explanation
Indices: 16070900--16070984 Score: 57
Period size: 11 Copynumber: 7.2 Consensus size: 11
16070890 ACAATCTGTC
16070900 CATCACCATCAT
1 CATCACCAT-AT
*
16070912 CATGC-CTATAT
1 CAT-CACCATAT
*
16070923 CATCGCCATAGT
1 CATCACCATA-T
16070935 CCATCACCATTAT
1 -CATCACCA-TAT
*
16070948 CA-CGCCTATAT
1 CATCACC-ATAT
16070959 CATCACCATATT
1 CATCACCATA-T
16070971 CCATCACCATAT
1 -CATCACCATAT
16070983 CA
1 CA
16070985 CGCCTATATT
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
10 1 0.02
11 22 0.37
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.31, C:0.36, G:0.05, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:16070991 original size:35 final size:35
Alignment explanation
Indices: 16070897--16071001 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 35
16070887 GATACAATCT
* *
16070897 GTCCATCACCATCATCATGCCTATATCATCGCCATA
1 GTCCATCACCAT-ATCACGCCTATATCATCACCATA
16070933 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCA-TATCACGCCTATATCATCACCATA
* *
16070969 TTCCATCACCATATCACGCCTATATTATCACCA
1 GTCCATCACCATATCACGCCTATATCATCACCA
16071002 ACTTATAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 21 0.33
36 42 0.66
37 1 0.02
ACGTcount: A:0.30, C:0.36, G:0.06, T:0.29
Consensus pattern (35 bp):
GTCCATCACCATATCACGCCTATATCATCACCATA
Found at i:16071828 original size:23 final size:25
Alignment explanation
Indices: 16071789--16071842 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
16071779 TTCTTTTCTT
16071789 TTTCTTCCTTTTTGAGTGCTTTCAA
1 TTTCTTCCTTTTTGAGTGCTTTCAA
* *
16071814 TTTCTT-C-TTTTGAGTGCTTTGAT
1 TTTCTTCCTTTTTGAGTGCTTTCAA
16071837 TTTCTT
1 TTTCTT
16071843 TGCTAGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 20 0.74
24 1 0.04
25 6 0.22
ACGTcount: A:0.09, C:0.17, G:0.13, T:0.61
Consensus pattern (25 bp):
TTTCTTCCTTTTTGAGTGCTTTCAA
Found at i:16071868 original size:14 final size:14
Alignment explanation
Indices: 16071832--16071870 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
16071822 TTTGAGTGCT
*
16071832 TTGATTTTCTTTGC
1 TTGATTTTTTTTGC
* *
16071846 TAGATTTTTTTTTC
1 TTGATTTTTTTTGC
16071860 TTGATTTTTTT
1 TTGATTTTTTT
16071871 CACTTTGCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.10, C:0.08, G:0.10, T:0.72
Consensus pattern (14 bp):
TTGATTTTTTTTGC
Found at i:16073732 original size:75 final size:75
Alignment explanation
Indices: 16073563--16073764 Score: 273
Period size: 74 Copynumber: 2.7 Consensus size: 75
16073553 CCGTTGTACA
* * * * *
16073563 AGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCTGAGCATACTGGAATTCTCGGAGC
1 AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCGGAGC
** *
16073627 AAAACTGTTT
66 AAAACCATTC
*
16073637 AGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGC
1 AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCGGAGC
*
16073701 CAAACCATTC
66 AAAACCATTC
*
16073711 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTG
1 A-GGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCTGAGCATTCTG
16073765 TAATTTTTGG
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
74 63 0.56
75 22 0.20
77 27 0.24
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (75 bp):
AGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCGGAGC
AAAACCATTC
Found at i:16078707 original size:30 final size:30
Alignment explanation
Indices: 16078671--16078727 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
16078661 GTGCTGGCAC
16078671 GCACATGGGTGCTGTTTTGCTCCAAATAAT
1 GCACATGGGTGCTGTTTTGCTCCAAATAAT
* *
16078701 GCACATGGGTGTTGTTTTGTTCCAAAT
1 GCACATGGGTGCTGTTTTGCTCCAAAT
16078728 GGTGAGTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (30 bp):
GCACATGGGTGCTGTTTTGCTCCAAATAAT
Found at i:16086613 original size:26 final size:26
Alignment explanation
Indices: 16086571--16086634 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
16086561 CTTGGCTTGC
16086571 TTTTCTCTTTT-TGAAATCTTT-TTCT
1 TTTTCTCTTTTCTGAAAT-TTTCTTCT
16086596 TTTTCTTCTTTTCT-AAATTTTCTTCT
1 TTTTC-TCTTTTCTGAAATTTTCTTCT
*
16086622 TTTTGTCTTTTCT
1 TTTTCTCTTTTCT
16086635 CTCTTTTTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 16 0.46
26 18 0.51
27 1 0.03
ACGTcount: A:0.09, C:0.17, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTTCTCTTTTCTGAAATTTTCTTCT
Found at i:16093888 original size:36 final size:36
Alignment explanation
Indices: 16093815--16093915 Score: 168
Period size: 36 Copynumber: 2.8 Consensus size: 36
16093805 ATTTATAAGT
* *
16093815 TGGTGATAATATAGGCGTGAT-ATGATGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
16093850 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
16093886 TGGTGATGATATAGGCGTGATAATGGTGAT
1 TGGTGATGATATAGGCGTGATAATGGTGAT
16093916 TGACATATTG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
35 20 0.32
36 42 0.68
ACGTcount: A:0.30, C:0.04, G:0.35, T:0.32
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
Found at i:16097846 original size:36 final size:36
Alignment explanation
Indices: 16097771--16097872 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 36
16097761 TATAAGTTGG
* * * * *
16097771 TGATAATATAGGCGTGAT-ATGATGATGAAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGA
16097806 TGATGATATAGGCGTGATAATGGTGATGGACTATGA
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGA
16097842 TGATGATATAGGCGTGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
16097873 AGATTGTATC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 17 0.28
36 44 0.72
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.30
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATGA
Found at i:16100957 original size:24 final size:21
Alignment explanation
Indices: 16100923--16100965 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
16100913 TCCACAAGAC
*
16100923 ATGTCCTTTGACATTTCAAATG
1 ATGTCCTTTGA-AATTCAAATG
16100945 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
16100966 AGAATATGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAATG
Found at i:16107277 original size:13 final size:12
Alignment explanation
Indices: 16107258--16107322 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 12
16107248 ATATGGGCGT
16107258 GATATGGTGATG
1 GATATGGTGATG
16107270 GAATATGGTGAT-
1 G-ATATGGTGATG
*
16107282 GATATAGGCG-T-
1 GATAT-GGTGATG
16107293 GATAATGGTGATG
1 GAT-ATGGTGATG
16107306 GACTATGGTGAT-
1 GA-TATGGTGATG
16107318 GATAT
1 GATAT
16107323 AGGCGTGATA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
11 14 0.31
12 10 0.22
13 20 0.44
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.35, T:0.32
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:16107313 original size:36 final size:36
Alignment explanation
Indices: 16107240--16107340 Score: 168
Period size: 36 Copynumber: 2.8 Consensus size: 36
16107230 ATTTATAAGT
* *
16107240 TGGTGATAATATGGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
16107275 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
16107311 TGGTGATGATATAGGCGTGATAATGGTGAT
1 TGGTGATGATATAGGCGTGATAATGGTGAT
16107341 AGACAGATTG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
35 19 0.31
36 43 0.69
ACGTcount: A:0.28, C:0.04, G:0.37, T:0.32
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
Found at i:16115440 original size:30 final size:30
Alignment explanation
Indices: 16115406--16115475 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
16115396 ATGATATGGT
16115406 AATGAAATAGGAAAAGATGAAAGAAAAGGA
1 AATGAAATAGGAAAAGATGAAAGAAAAGGA
*
16115436 AATGAAATAGGAAGAGATGAAAGAAAAGGA
1 AATGAAATAGGAAAAGATGAAAGAAAAGGA
16115466 AATGAAATAG
1 AATGAAATAG
16115476 TAAGAAAGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.11
Consensus pattern (30 bp):
AATGAAATAGGAAAAGATGAAAGAAAAGGA
Found at i:16115470 original size:15 final size:15
Alignment explanation
Indices: 16115422--16115472 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
16115412 ATAGGAAAAG
16115422 ATGAAAGAAAAGGAA
1 ATGAAAGAAAAGGAA
* * *
16115437 ATGAAATAGGAA-GAG
1 ATGAAAGA-AAAGGAA
16115452 ATGAAAGAAAAGGAA
1 ATGAAAGAAAAGGAA
16115467 ATGAAA
1 ATGAAA
16115473 TAGTAAGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.27, T:0.10
Consensus pattern (15 bp):
ATGAAAGAAAAGGAA
Found at i:16115482 original size:15 final size:15
Alignment explanation
Indices: 16115406--16115487 Score: 53
Period size: 15 Copynumber: 5.4 Consensus size: 15
16115396 ATGATATGGT
16115406 AATGAAATAGGAAA-A
1 AATGAAATA-GAAAGA
* *
16115421 GATGAAAGA-AAAGGA
1 AATGAAATAGAAA-GA
*
16115436 AATGAAATAGGAAGA
1 AATGAAATAGAAAGA
* *
16115451 GATGAAAGA-AAAGGA
1 AATGAAATAGAAA-GA
*
16115466 AATGAAATAGTAAGA
1 AATGAAATAGAAAGA
16115481 AAGTGAA
1 AA-TGAA
16115488 GATAACTTAC
Statistics
Matches: 50, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
13 3 0.06
14 2 0.04
15 37 0.74
16 8 0.16
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (15 bp):
AATGAAATAGAAAGA
Found at i:16115635 original size:28 final size:26
Alignment explanation
Indices: 16115604--16115661 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
16115594 TTTGAATGTA
16115604 CTTTGCAA-CTTTCTTCACTTTTCTTTTT
1 CTTTG-AATCTTTCTTC-CTTTTC-TTTT
* *
16115632 CTTTGAATTTTTCTTCTTTTTCTTTT
1 CTTTGAATCTTTCTTCCTTTTCTTTT
16115658 CTTT
1 CTTT
16115662 CTTTGGCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 8 0.30
27 7 0.26
28 12 0.44
ACGTcount: A:0.09, C:0.21, G:0.03, T:0.67
Consensus pattern (26 bp):
CTTTGAATCTTTCTTCCTTTTCTTTT
Found at i:16115722 original size:17 final size:17
Alignment explanation
Indices: 16115697--16115730 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16115687 AGGAGTATTC
16115697 TTTTTTTCTTT-TTGTT
1 TTTTTTTCTTTCTTGTT
16115713 TTTTTCTTCTTTCTTGTT
1 TTTTT-TTCTTTCTTGTT
16115731 GCTTTTGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTTTCTTTCTTGTT
Found at i:16127625 original size:36 final size:36
Alignment explanation
Indices: 16127552--16127656 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
16127542 ATTTATAAGT
* *
16127552 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
16127587 TGGTGATGATATAGACGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
16127623 TGGTGATGATATAGGTGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
16127657 AGATTGTATC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 19 0.30
36 45 0.70
ACGTcount: A:0.30, C:0.04, G:0.35, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:16132876 original size:24 final size:24
Alignment explanation
Indices: 16132849--16132894 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
16132839 CGAACACAAC
* *
16132849 TCTTGGCACTTCAAGTGACGTTTT
1 TCTTGGAACTTCAAATGACGTTTT
16132873 TCTTGGAACTTCAAATGACGTT
1 TCTTGGAACTTCAAATGACGTT
16132895 ATCTTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (24 bp):
TCTTGGAACTTCAAATGACGTTTT
Found at i:16134710 original size:11 final size:12
Alignment explanation
Indices: 16134656--16134720 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 12
16134646 TTTAGAAGTT
*
16134656 GGTGATAATATA
1 GGTGATGATATA
*
16134668 GGCG-TGATAT-
1 GGTGATGATATA
16134678 GGTGATGGAATATA
1 GGTGAT-G-ATATA
16134692 -GTGATGATATA
1 GGTGATGATATA
16134703 GGTG-TGATA-A
1 GGTGATGATATA
16134713 TGGTGATG
1 -GGTGATG
16134721 GACAGATTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
10 4 0.09
11 20 0.47
12 10 0.23
13 9 0.21
ACGTcount: A:0.31, C:0.02, G:0.35, T:0.32
Consensus pattern (12 bp):
GGTGATGATATA
Found at i:16140866 original size:25 final size:25
Alignment explanation
Indices: 16140832--16140883 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
16140822 ATATTAACGA
16140832 GGCATTGTTTAACTACCTTCATCTC
1 GGCATTGTTTAACTACCTTCATCTC
16140857 GGCATTGTTTAACTACCTTCATCTC
1 GGCATTGTTTAACTACCTTCATCTC
16140882 GG
1 GG
16140884 TACTCTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.38
Consensus pattern (25 bp):
GGCATTGTTTAACTACCTTCATCTC
Found at i:16153572 original size:282 final size:282
Alignment explanation
Indices: 16153053--16153607 Score: 966
Period size: 282 Copynumber: 2.0 Consensus size: 282
16153043 TATTATTATT
* *
16153053 ATAATTATAGATTATATGCTTGAATATCAATCAATGATACAAAGCATATAATGAATGAATGCACA
1 ATAACTATAGATTATATGCTTGAATATCAATCAATGATACAAACCATATAATGAATGAATGCACA
* *
16153118 TGTTATGATAATTCAAGTGTAGTCTAATCTGCAAATGTATACTCATAATAATATATAGTGCATCA
66 TGTTATGATAATTCAAGTATAGTCTAATCTGCAAATGTATACTCATAATAATATATAGTGCATAA
* *
16153183 ATAAGTAAATATAAGATAAAGTAAGGTAGAACTCCCTTAGAACCATATTTGAATAACATCCATGG
131 ATAAGTAAATATAAGATAAAGTAAGGTAGAACTCCCTTAGAACAAGATTTGAATAACATCCATGG
* *
16153248 TGTGATCAAGTCATGGAGAAAAATGGAGCTATACAGGATCACATCACTTAAAGTGCCAAGAGTTG
196 TGTGATCAAGTCATGGAGAAAAATGGAGCTAGACAAGATCACATCACTTAAAGTGCCAAGAGTTG
*
16153313 TGTTCGTTGACATATGTTAATA
261 TGTCCGTTGACATATGTTAATA
*
16153335 ATAACTATAGATTATATGCTTGAATATCAATCAATGATACAAACCATATAATGAATGAATGCCCA
1 ATAACTATAGATTATATGCTTGAATATCAATCAATGATACAAACCATATAATGAATGAATGCACA
*
16153400 TGTTATGATAATTCAAGTATAGTCTAATCTGCAAATGTATGCTCATAATAATATATAGTGCATAA
66 TGTTATGATAATTCAAGTATAGTCTAATCTGCAAATGTATACTCATAATAATATATAGTGCATAA
16153465 ATAAGTAAATATAAGATAAAGTAAGGTAGAACTCCCTTAGAACAAGATTTGAATAACATCCATGG
131 ATAAGTAAATATAAGATAAAGTAAGGTAGAACTCCCTTAGAACAAGATTTGAATAACATCCATGG
* * * * *
16153530 TGTGATCAAGTTATGGAGAAAATTTGAGCTAGACAAGATCACATCGCTTGAAGTGCCAAGAGTTG
196 TGTGATCAAGTCATGGAGAAAAATGGAGCTAGACAAGATCACATCACTTAAAGTGCCAAGAGTTG
16153595 TGTCCGTTGACAT
261 TGTCCGTTGACAT
16153608 TCCCAGTGCA
Statistics
Matches: 257, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
282 257 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (282 bp):
ATAACTATAGATTATATGCTTGAATATCAATCAATGATACAAACCATATAATGAATGAATGCACA
TGTTATGATAATTCAAGTATAGTCTAATCTGCAAATGTATACTCATAATAATATATAGTGCATAA
ATAAGTAAATATAAGATAAAGTAAGGTAGAACTCCCTTAGAACAAGATTTGAATAACATCCATGG
TGTGATCAAGTCATGGAGAAAAATGGAGCTAGACAAGATCACATCACTTAAAGTGCCAAGAGTTG
TGTCCGTTGACATATGTTAATA
Found at i:16155374 original size:30 final size:31
Alignment explanation
Indices: 16155335--16155394 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
16155325 ACATGCTGCC
**
16155335 ATGATATCTAAATGATATGAAAACATAATAA
1 ATGATATCTAAAACATATGAAAACATAATAA
*
16155366 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGAAAACATAATA
16155395 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGAAAACATAATAA
Found at i:16157651 original size:15 final size:15
Alignment explanation
Indices: 16157633--16157672 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
16157623 TGAAGACAAG
16157633 GAAAATGAAAGGATA
1 GAAAATGAAAGGATA
16157648 GAAAATGAAAGGATA
1 GAAAATGAAAGGATA
16157663 GAAAAT-AAAG
1 GAAAATGAAAG
16157673 AGGTGACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (15 bp):
GAAAATGAAAGGATA
Found at i:16158750 original size:30 final size:31
Alignment explanation
Indices: 16158711--16158770 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
16158701 ACATGATGCC
**
16158711 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
16158742 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
16158771 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:16160055 original size:30 final size:30
Alignment explanation
Indices: 16160012--16160078 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
16160002 TACACTTTGG
* * * *
16160012 AACAGCTTGGTGGAGCATTTGGAATATATA
1 AACAACTTAGTGGAGCATTTGGAAGACATA
*
16160042 AACAACTTAGTGGAGCATTTGGGAGACATA
1 AACAACTTAGTGGAGCATTTGGAAGACATA
16160072 AACAACT
1 AACAACT
16160079 CACAAACATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.25
Consensus pattern (30 bp):
AACAACTTAGTGGAGCATTTGGAAGACATA
Found at i:16164128 original size:24 final size:21
Alignment explanation
Indices: 16164094--16164136 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
16164084 TGCACAAGAT
*
16164094 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
16164116 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
16164137 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:16168091 original size:24 final size:21
Alignment explanation
Indices: 16168057--16168099 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
16168047 TGCACAAGAT
*
16168057 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
16168079 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
16168100 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:16171551 original size:19 final size:20
Alignment explanation
Indices: 16171512--16171554 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16171502 GAAACCCCTT
*
16171512 TGAAAACACATGATATTTAA
1 TGAAAACACATAATATTTAA
*
16171532 TGAAAATACATAAT-TTTAA
1 TGAAAACACATAATATTTAA
16171551 TGAA
1 TGAA
16171555 GATAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (20 bp):
TGAAAACACATAATATTTAA
Found at i:16175781 original size:13 final size:12
Alignment explanation
Indices: 16175762--16175847 Score: 67
Period size: 11 Copynumber: 7.2 Consensus size: 12
16175752 ATATGGGCGT
16175762 GATATGGTGATG
1 GATATGGTGATG
16175774 GAATATGGTGAT-
1 G-ATATGGTGATG
*
16175786 GATATAGGCG-T-
1 GATAT-GGTGATG
16175797 GATAATGGTGATG
1 GAT-ATGGTGATG
16175810 GACTATGGTGAT-
1 GA-TATGGTGATG
16175822 GATATAGGTG-T-
1 GATAT-GGTGATG
16175833 GATAATGGTGATG
1 GAT-ATGGTGATG
16175846 GA
1 GA
16175848 CAGATTGTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
11 22 0.35
12 17 0.27
13 22 0.35
14 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:16175817 original size:36 final size:36
Alignment explanation
Indices: 16175744--16175848 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
16175734 ATTTATAAGT
* * *
16175744 TGGTGATAATATGGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
16175779 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
16175815 TGGTGATGATATAGGTGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
16175849 AGATTGTATC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 19 0.29
36 46 0.71
ACGTcount: A:0.28, C:0.04, G:0.37, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:16177172 original size:22 final size:22
Alignment explanation
Indices: 16177147--16177188 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
16177137 CAATTCATTT
16177147 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
16177169 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
16177189 CCAACACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:16177532 original size:11 final size:11
Alignment explanation
Indices: 16177516--16177542 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16177506 TATTTTTTTC
16177516 AAAAAAAACAA
1 AAAAAAAACAA
16177527 AAAAAAAACAA
1 AAAAAAAACAA
16177538 AAAAA
1 AAAAA
16177543 GCCAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:16177558 original size:28 final size:29
Alignment explanation
Indices: 16177517--16177579 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
16177507 ATTTTTTTCA
16177517 AAAAAAACAAAAAAAAAACAAAAAAAGCC
1 AAAAAAACAAAAAAAAAACAAAAAAAGCC
**
16177546 AAAAAAAC-AAAAAAAGCCAAAAAAAGCC
1 AAAAAAACAAAAAAAAAACAAAAAAAGCC
16177574 AAAAAA
1 AAAAAA
16177580 GCCAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.81, C:0.14, G:0.05, T:0.00
Consensus pattern (29 bp):
AAAAAAACAAAAAAAAAACAAAAAAAGCC
Found at i:16177571 original size:10 final size:10
Alignment explanation
Indices: 16177515--16177586 Score: 87
Period size: 10 Copynumber: 7.5 Consensus size: 10
16177505 CTATTTTTTT
*
16177515 CAAAAAAAAC
1 CAAAAAAAGC
* **
16177525 AAAAAAAAAA
1 CAAAAAAAGC
16177535 CAAAAAAAGC
1 CAAAAAAAGC
16177545 CAAAAAAA--
1 CAAAAAAAGC
16177553 CAAAAAAAGC
1 CAAAAAAAGC
16177563 CAAAAAAAGC
1 CAAAAAAAGC
16177573 C-AAAAAAGC
1 CAAAAAAAGC
16177582 CAAAA
1 CAAAA
16177587 TTTCAAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
8 8 0.15
9 9 0.17
10 37 0.69
ACGTcount: A:0.78, C:0.17, G:0.06, T:0.00
Consensus pattern (10 bp):
CAAAAAAAGC
Found at i:16177577 original size:9 final size:9
Alignment explanation
Indices: 16177537--16177586 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
16177527 AAAAAAAACA
16177537 AAAAAAGCC
1 AAAAAAGCC
* *
16177546 AAAAAAACA
1 AAAAAAGCC
16177555 AAAAAAGCC
1 AAAAAAGCC
16177564 AAAAAAAGCC
1 -AAAAAAGCC
16177574 AAAAAAGCC
1 AAAAAAGCC
16177583 AAAA
1 AAAA
16177587 TTTCAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
9 27 0.75
10 9 0.25
ACGTcount: A:0.74, C:0.18, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAGCC
Found at i:16177597 original size:18 final size:18
Alignment explanation
Indices: 16177528--16177586 Score: 100
Period size: 18 Copynumber: 3.2 Consensus size: 18
16177518 AAAAAACAAA
16177528 AAAAAAACAAAAAAAGCC
1 AAAAAAACAAAAAAAGCC
16177546 AAAAAAACAAAAAAAGCC
1 AAAAAAACAAAAAAAGCC
*
16177564 AAAAAAAGCCAAAAAAGCC
1 AAAAAAA-CAAAAAAAGCC
16177583 AAAA
1 AAAA
16177587 TTTCAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
18 25 0.64
19 14 0.36
ACGTcount: A:0.76, C:0.17, G:0.07, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAAAAAGCC
Found at i:16191050 original size:13 final size:12
Alignment explanation
Indices: 16191031--16191116 Score: 67
Period size: 11 Copynumber: 7.2 Consensus size: 12
16191021 ATATGGGCGT
16191031 GATATGGTGATG
1 GATATGGTGATG
16191043 GAATATGGTGAT-
1 G-ATATGGTGATG
*
16191055 GATATAGGCG-T-
1 GATAT-GGTGATG
16191066 GATAATGGTGATG
1 GAT-ATGGTGATG
16191079 GACTATGGTGAT-
1 GA-TATGGTGATG
16191091 GATATAGGTG-T-
1 GATAT-GGTGATG
16191102 GATAATGGTGATG
1 GAT-ATGGTGATG
16191115 GA
1 GA
16191117 CAGATTGTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
11 22 0.35
12 17 0.27
13 22 0.35
14 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:16191086 original size:36 final size:36
Alignment explanation
Indices: 16191013--16191117 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
16191003 ATTTATAAAT
* * *
16191013 TGGTGATAATATGGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
16191048 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
16191084 TGGTGATGATATAGGTGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
16191118 AGATTGTATC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 19 0.29
36 46 0.71
ACGTcount: A:0.28, C:0.04, G:0.37, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:16192426 original size:11 final size:11
Alignment explanation
Indices: 16192412--16192463 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
16192402 TTGCAATTCA
16192412 TTTATCTT-TT
1 TTTATCTTATT
16192422 CTTTATCTT-TT
1 -TTTATCTTATT
*
16192433 CTTTATCTTGTT
1 -TTTATCTTATT
*
16192445 TTAATCTTATT
1 TTTATCTTATT
16192456 TTTATCTT
1 TTTATCTT
16192464 GTTTCCAGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
11 35 0.95
12 2 0.05
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTATCTTATT
Found at i:16192437 original size:22 final size:22
Alignment explanation
Indices: 16192412--16192467 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
16192402 TTGCAATTCA
*
16192412 TTTATCTT-TTCTTTATCTT-TT
1 TTTATCTTGTT-TTAATCTTATT
16192433 CTTTATCTTGTTTTAATCTTATT
1 -TTTATCTTGTTTTAATCTTATT
16192456 TTTATCTTGTTT
1 TTTATCTTGTTT
16192468 CCAGCACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTATCTTGTTTTAATCTTATT
Found at i:16196152 original size:11 final size:11
Alignment explanation
Indices: 16196114--16196198 Score: 75
Period size: 11 Copynumber: 7.2 Consensus size: 11
16196104 AATATGGGCG
16196114 TGATATGGTGA
1 TGATATGGTGA
16196125 TGGAATATGGTGA
1 T-G-ATATGGTGA
16196138 TGATATAGGTG-
1 TGATAT-GGTGA
16196149 TGATAATGGTGA
1 TGAT-ATGGTGA
16196161 TGGACTATGGTGA
1 T-GA-TATGGTGA
*
16196174 TGATATAGG-CA
1 TGATAT-GGTGA
16196185 TGATAATGGTGA
1 TGAT-ATGGTGA
16196197 TG
1 TG
16196199 GACAGATTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
11 23 0.37
12 18 0.29
13 20 0.32
14 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.33
Consensus pattern (11 bp):
TGATATGGTGA
Found at i:16196170 original size:36 final size:36
Alignment explanation
Indices: 16196097--16196201 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 36
16196087 ATTTATAAGT
* * *
16196097 TGGTGATAATATGGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
16196132 TGGTGATGATATAGGTGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
16196168 TGGTGATGATATAGGCATGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
16196202 AGATTGTATC
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 18 0.29
36 45 0.71
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:16199635 original size:11 final size:11
Alignment explanation
Indices: 16199618--16199653 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
16199608 TATTTTTTTC
16199618 AAAAAAAA-AA
1 AAAAAAAACAA
*
16199628 ACAAAAAACAA
1 AAAAAAAACAA
16199639 AAAAAAAACAA
1 AAAAAAAACAA
16199650 AAAA
1 AAAA
16199654 GCCAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.30
11 16 0.70
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:16199660 original size:18 final size:18
Alignment explanation
Indices: 16199619--16199653 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
16199609 ATTTTTTTCA
16199619 AAAAAAAAAACAAAAAAC
1 AAAAAAAAAACAAAAAAC
16199637 AAAAAAAAAACAAAAAA
1 AAAAAAAAAACAAAAAA
16199654 GCCAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAACAAAAAAC
Found at i:16214474 original size:24 final size:21
Alignment explanation
Indices: 16214440--16214482 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
16214430 TCCACAAGAA
*
16214440 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
16214462 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
16214483 AGAATGTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:16219496 original size:15 final size:15
Alignment explanation
Indices: 16219460--16219489 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16219450 GTGCTTCACC
16219460 TTTCTTT-CTTTTCT
1 TTTCTTTGCTTTTCT
16219474 TTTCTTTGCTTTTCT
1 TTTCTTTGCTTTTCT
16219489 T
1 T
16219490 CTTTTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTCTTTGCTTTTCT
Found at i:16219512 original size:27 final size:28
Alignment explanation
Indices: 16219482--16219543 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
16219472 CTTTTCTTTG
* *
16219482 CTTTTCTTCTTTTTGAATGC-TGAATTT
1 CTTTTCTTCTTTTAGAATGCTTCAATTT
*
16219509 C-TTTCTTTCTTTTAGAGTGCTTCAATTT
1 CTTTTC-TTCTTTTAGAATGCTTCAATTT
16219537 CTTTTCT
1 CTTTTCT
16219544 GATTTTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 13 0.45
28 8 0.28
29 4 0.14
ACGTcount: A:0.13, C:0.18, G:0.10, T:0.60
Consensus pattern (28 bp):
CTTTTCTTCTTTTAGAATGCTTCAATTT
Found at i:16220947 original size:19 final size:21
Alignment explanation
Indices: 16220923--16220973 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
16220913 GGCCAAGAAA
*
16220923 ATGTATCTTCA-TT-AAAATC
1 ATGTATTTTCATTTAAAAATC
16220942 ATGTATTTTCATTTAAAAATC
1 ATGTATTTTCATTTAAAAATC
16220963 ATGTATTTTCA
1 ATGTATTTTCA
16220974 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 10 0.34
20 2 0.07
21 17 0.59
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (21 bp):
ATGTATTTTCATTTAAAAATC
Found at i:16222782 original size:19 final size:20
Alignment explanation
Indices: 16222745--16222784 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
16222735 GGATAATAAT
16222745 ATAAGTAATGAAAATAAATA
1 ATAAGTAATGAAAATAAATA
16222765 ATAAG-AAT-AAAATGAAATA
1 ATAAGTAATGAAAAT-AAATA
16222784 A
1 A
16222785 ATAAAGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (20 bp):
ATAAGTAATGAAAATAAATA
Found at i:16223240 original size:19 final size:21
Alignment explanation
Indices: 16223197--16223248 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
16223187 GAAACCCCTT
16223197 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
16223218 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
16223237 TGAAGATACATG
1 TGAAAATACATG
16223249 CTCTTGGCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:16230705 original size:35 final size:37
Alignment explanation
Indices: 16230659--16230738 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
16230649 TTTGAGAATT
*
16230659 TGGTGATGATATAGGCGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
16230694 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
16230731 TGGTGATG
1 TGGTGATG
16230739 GAAATAGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 21 0.51
36 4 0.10
37 16 0.39
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:16235177 original size:35 final size:37
Alignment explanation
Indices: 16235131--16235210 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
16235121 TTTGAGAATT
*
16235131 TGGTGATGATATAGGCGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
16235166 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
16235203 TGGTGATG
1 TGGTGATG
16235211 GAAATAGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 21 0.51
36 4 0.10
37 16 0.39
ACGTcount: A:0.28, C:0.04, G:0.38, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:16243125 original size:19 final size:20
Alignment explanation
Indices: 16243101--16243151 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
16243091 CGGCCAAGAG
* *
16243101 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
16243120 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
16243140 CATGTATTTTCA
1 CATGTATTTTCA
16243152 AATGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:16246351 original size:33 final size:32
Alignment explanation
Indices: 16246287--16246351 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
16246277 CTTGTTGATG
*
16246287 AATGAAGGATGATTTAATGGTGATGAAATGGT
1 AATGAAGGATGATTTAATGGCGATGAAATGGT
* *
16246319 AATGAAAGGATGATGTTATTGGCG-TGATATGGT
1 AATG-AAGGATGAT-TTAATGGCGATGAAATGGT
16246352 GATGGATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 4 0.14
33 17 0.61
34 7 0.25
ACGTcount: A:0.34, C:0.02, G:0.32, T:0.32
Consensus pattern (32 bp):
AATGAAGGATGATTTAATGGCGATGAAATGGT
Found at i:16246780 original size:19 final size:20
Alignment explanation
Indices: 16246733--16246783 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
16246723 GAAATCCCTT
**
16246733 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
16246753 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
16246772 TGAAGATACATG
1 TGAAAATACATG
16246784 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:16250370 original size:33 final size:32
Alignment explanation
Indices: 16250306--16250370 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
16250296 CTTGTTGATG
*
16250306 AATGAAGGATGATTTAATGGTGATGAAATGGT
1 AATGAAGGATGATTTAATGGCGATGAAATGGT
* *
16250338 AATGAAAGGATGATGTTATTGGCG-TGATATGGT
1 AATG-AAGGATGAT-TTAATGGCGATGAAATGGT
16250371 GATGGATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 4 0.14
33 17 0.61
34 7 0.25
ACGTcount: A:0.34, C:0.02, G:0.32, T:0.32
Consensus pattern (32 bp):
AATGAAGGATGATTTAATGGCGATGAAATGGT
Done.