Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold365
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: 1826335
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 11
Found at i:100 original size:46 final size:46
Alignment explanation
Indices: 41--164 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
31 TATCGGTTTC
* * *
41 CCCTAGTCAAACCCTTTTCGTTATCATTTGACCTTTATCAGTTACCA
1 CCCTAGTCAAACCCTTTTCATTCTCATTTGACCTATATC-GTTACCA
* * *
88 CCCTGGTC-AACCCTTTTCACTCTCATTTGA-GTATATCGTTACCA
1 CCCTAGTCAAACCCTTTTCATTCTCATTTGACCTATATCGTTACCA
132 CCCTAGTCCAAACCCTTTTCATTCTCATTTGAC
1 CCCTAGT-CAAACCCTTTTCATTCTCATTTGAC
165 TGTATTTGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 13 0.20
45 6 0.09
46 40 0.61
47 7 0.11
ACGTcount: A:0.22, C:0.32, G:0.09, T:0.37
Consensus pattern (46 bp):
CCCTAGTCAAACCCTTTTCATTCTCATTTGACCTATATCGTTACCA
Found at i:430 original size:43 final size:41
Alignment explanation
Indices: 323--431 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 41
313 ATCAGCTATC
* * *
323 ACTTTTTATCTTTTGTTGACTTATCAGTTTAATCTTGATTA
1 ACTTTTTATCTTTTGTTGACTTGTCAGTTTAATCTAGAGTA
* *
364 ACTTCTTTATCTTTTGTTTACTTGTCAGTTTAGTCCTAG-GTA
1 ACTT-TTTATCTTTTGTTGACTTGTCAGTTTAAT-CTAGAGTA
*
406 AGTCTTTTTATCTTTTATTGACTTGT
1 A--CTTTTTATCTTTTGTTGACTTGT
432 TGGTTCAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 4 0.07
42 29 0.51
43 21 0.37
44 3 0.05
ACGTcount: A:0.18, C:0.14, G:0.12, T:0.56
Consensus pattern (41 bp):
ACTTTTTATCTTTTGTTGACTTGTCAGTTTAATCTAGAGTA
Found at i:452 original size:85 final size:84
Alignment explanation
Indices: 363--1114 Score: 357
Period size: 85 Copynumber: 9.1 Consensus size: 84
353 AATCTTGATT
* * * *
363 AACTTCTTTATCTTTTGTTTACTTGTCAGTTTAGTCCTAGGTAAGTCTTTTTATCTTTTATTGAC
1 AACTTCTTTATCCTTTATTTACTTGTC-GTTTAGTCCTAGGTAAATCCTTTTATCTTTTATTGAC
*
428 TTGTTGGTTCAATCCCAGTC
65 TTGTTGGTTCAATCCCAATC
* * * *
448 AACTTCTTTATCCGTTATTTACTTGTC-TTTAGTTCTGGGTAAATCCTTTTATCTTTTGTTGACT
1 AACTTCTTTATCCTTTATTTACTTGTCGTTTAGTCCTAGGTAAATCCTTTTATCTTTTATTGACT
* ** *
512 TATCAGTTCAATCTCAATC
66 TGTTGGTTCAATCCCAATC
* * *
531 AACTTCTTTATCCTTTATTTACCTAT-TGGTTTAGTCTTAGGTAAATCCTTTTATCCTTTATTGA
1 AACTTCTTTATCCTTTATTTA-CT-TGTCGTTTAGTCCTAGGTAAATCCTTTTATCTTTTATTGA
* ****
595 CTTGTTGATTCAATCTTGGTC
64 CTTGTTGGTTCAATCCCAATC
* * ** ** * * *
616 AATTTCTTTA-CC--TGTTGGC---TCAATT--T--TGGGTAAATCCTTTTATCCTTTGTTGACT
1 AACTTCTTTATCCTTTATTTACTTGTCGTTTAGTCCTAGGTAAATCCTTTTATCTTTTATTGACT
*** * *
671 TGTCAATTTAATCCCGATC
66 TGTTGGTTCAATCCCAATC
* * * * * * * * *
690 AACTTCTTTATCTTTTGTTTACCTAGTCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGA
1 AACTTCTTTATCCTTTATTTA-CTTGTC-GTTTAGTCCTAGGTAAATCCTTTTATCTTTTATTGA
* ** ****
755 CTTATCAGTTCAATCTTGGTC
64 CTTGTTGGTTCAATCCCAATC
* ** * * * * * *
776 AACTTTTTTTATTTTTTGTTTACCTATCGATTTAGT-CTCGAGTAAATCCTTTTATCCTTTGTTG
1 AAC-TTCTTTATCCTTTATTTACTTGTCG-TTTAGTCCTAG-GTAAATCCTTTTATCTTTTATTG
* * ***
840 ATTTGTCGGTTCAATCTTGATC
63 ACTTGTTGGTTCAATCCCAATC
* * * * * * * * *
862 AACATCTTTA--C-TTA--T-C--G--GCTCAGTCTTGGGTAAATCCTTGTATCCTTTGTTAACT
1 AACTTCTTTATCCTTTATTTACTTGTCGTTTAGTCCTAGGTAAATCCTTTTATCTTTTATTGACT
* * * * *
917 TATCGGTTCAATCCTAGTA
66 TGTTGGTTCAATCCCAATC
* * * * *
936 AACTTCTTTATCCTTTGTTTACTTGTCGGCTTAGT-ATCAGGTAAATCCTTTTATCCTTTGTTGA
1 AACTTCTTTATCCTTTATTTACTTGTC-GTTTAGTCCT-AGGTAAATCCTTTTATCTTTTATTGA
** *
1000 CTTGTCAGTTCAATCCCGATC
64 CTTGTTGGTTCAATCCCAATC
* * * * * *
1021 AACTTCTTTATCCTTTATTTACCTATCGGTTTAGTCCTAGATAAAT-CTTTTATCTTCTGTTGGC
1 AACTTCTTTATCCTTTATTTACTTGTC-GTTTAGTCCTAGGTAAATCCTTTTATCTTTTATTGAC
* ***
1085 TTGTTGGTTAAATCCTGGTC
65 TTGTTGGTTCAATCCCAATC
1105 AACTTCTTTA
1 AACTTCTTTA
1115 CTTGTCAACT
Statistics
Matches: 523, Mismatches: 112, Indels: 65
0.75 0.16 0.09
Matches are distributed among these distances:
74 99 0.19
75 4 0.01
76 2 0.00
77 6 0.01
78 4 0.01
79 2 0.00
80 2 0.00
81 3 0.01
82 7 0.01
83 66 0.13
84 47 0.09
85 168 0.32
86 97 0.19
87 16 0.03
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (84 bp):
AACTTCTTTATCCTTTATTTACTTGTCGTTTAGTCCTAGGTAAATCCTTTTATCTTTTATTGACT
TGTTGGTTCAATCCCAATC
Found at i:542 original size:42 final size:41
Alignment explanation
Indices: 323--542 Score: 99
Period size: 42 Copynumber: 5.2 Consensus size: 41
313 ATCAGCTATC
* * ** *
323 ACTTTTTATCTTTTGTTGACTTATCAGTTTAATCTTGATTA
1 ACTTTTTATCTTTTGTTGACTTGTCAGTTCAATCTCAATCA
* * * *
364 ACTTCTTTATCTTTTGTTTACTTGTCAGTTTAGTC-CTAGGT-A
1 ACTT-TTTATCTTTTGTTGACTTGTCAGTTCAATCTC-A-ATCA
* ** * *
406 AGTCTTTTTATCTTTTATTGACTTGTTGGTTCAATCCCAGTCA
1 A--CTTTTTATCTTTTGTTGACTTGTCAGTTCAATCTCAATCA
** * * **** *
449 ACTTCTTTATCCGTTATTTACTTGTCTTTAGTTCTGGGTAAATC-
1 ACTT-TTTATCTTTTGTTGACTTGTC---AGTTCAATCTCAATCA
*
493 -C-TTTTATCTTTTGTTGACTTATCAGTTCAATCTCAATCA
1 ACTTTTTATCTTTTGTTGACTTGTCAGTTCAATCTCAATCA
532 ACTTCTTTATC
1 ACTT-TTTATC
543 CTTTATTTAC
Statistics
Matches: 130, Mismatches: 34, Indels: 29
0.67 0.18 0.15
Matches are distributed among these distances:
38 10 0.08
40 1 0.01
41 24 0.18
42 55 0.42
43 29 0.22
44 4 0.03
45 7 0.05
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (41 bp):
ACTTTTTATCTTTTGTTGACTTGTCAGTTCAATCTCAATCA
Found at i:733 original size:86 final size:85
Alignment explanation
Indices: 622--1273 Score: 422
Period size: 85 Copynumber: 7.9 Consensus size: 85
612 GGTCAATTTC
* * * * * *
622 TTTACCTGTTGGCTCAATTTTGGGTAAATCCTTTTATCCTTTGTTGACTTGTCAATTTAATCCCG
1 TTTACCTATCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCG
*
687 ATCAACTTCTTTATCTTTTG
66 ATCAACTTCTTTATCCTTTG
* **
707 TTTACCTAGTCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTATCAGTTCAATCTT
1 TTTACCTA-TCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCC
* * **
772 GGTCAACTTTTTTTATTTTTTG
65 GATCAAC-TTCTTTATCCTTTG
** * * * * * **
794 TTTACCTATCGATTTAGTCTCGAGTAAATCCTTTTATCCTTTGTTGATTTGTCGGTTCAATCTTG
1 TTTACCTATCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCG
859 ATCAA---C---AT-C----
66 ATCAACTTCTTTATCCTTTG
* * * * * *
868 TTTACTTATCGGCTCAGTCTTGGGTAAATCCTTGTATCCTTTGTTAACTTATCGGTTCAAT-CCT
1 TTTACCTATCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCG
*
932 AGTAAACTTCTTTATCCTTTG
66 A-TCAACTTCTTTATCCTTTG
* * * * **
953 TTTACTTGTCGGCTTAGTATCAGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCG
1 TTTACCTATCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCG
*
1018 ATCAACTTCTTTATCCTTTA
66 ATCAACTTCTTTATCCTTTG
* * * * * * ** * *
1038 TTTACCTATCGGTTTAGTCCTAGATAAAT-CTTTTAT-CTTCTGTTGGCTTGTTGGTTAAATCCT
1 TTTACCTATCGGCTCAGTCTTGGGTAAATCCTTTTATCCTT-TGTTGACTTGTCAGTTCAATCCC
*
1101 GGTCAACTTCTTTA--C-TTG
65 GATCAACTTCTTTATCCTTTG
* * ** * * * * * * *
1119 --T--C-A---ACTTAGTCCCGAGTAAATCTTTTTATCCTCTGTTGACTTATCGGTTCCATCTCG
1 TTTACCTATCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCG
*
1176 GTCAACTTCTTTATCCTTTG
66 ATCAACTTCTTTATCCTTTG
* * ** * ** * * * ** *
1196 TTTACTTCTCGATTTAGTCCCGAGTAAATCCTTTTATCC-TTGTT-ATTTATTGGTTTAATCCCG
1 TTTACCTATCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCG
1259 ATCAACTTCTTTATC
66 ATCAACTTCTTTATC
1274 TATCGGCTTA
Statistics
Matches: 449, Mismatches: 89, Indels: 60
0.75 0.15 0.10
Matches are distributed among these distances:
73 13 0.03
74 90 0.20
75 2 0.00
76 2 0.00
77 5 0.01
79 4 0.01
80 2 0.00
81 3 0.01
82 1 0.00
83 31 0.07
84 42 0.09
85 124 0.28
86 110 0.24
87 20 0.04
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (85 bp):
TTTACCTATCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTGTCAGTTCAATCCCG
ATCAACTTCTTTATCCTTTG
Found at i:745 original size:44 final size:43
Alignment explanation
Indices: 696--838 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 43
686 GATCAACTTC
* *
696 TTTATCTTTTGTTTACCTAGTCGGCTCAGTCTTGGGTAAATCCT
1 TTTATCCTTTGTTTACCTA-TCGGTTCAGTCTTGGGTAAATCCT
* * * * * **
740 TTTATCCTTTGTTGACTTATCAGTTCAATCTT-GGTCAACTTTT
1 TTTATCCTTTGTTTACCTATCGGTTCAGTCTTGGGT-AAATCCT
** * * * *
783 TTTATTTTTTGTTTACCTATCGATTTAGTCTCGAGTAAATCCT
1 TTTATCCTTTGTTTACCTATCGGTTCAGTCTTGGGTAAATCCT
826 TTTATCCTTTGTT
1 TTTATCCTTTGTT
839 GATTTGTCGG
Statistics
Matches: 73, Mismatches: 24, Indels: 5
0.72 0.24 0.05
Matches are distributed among these distances:
42 3 0.04
43 52 0.71
44 18 0.25
ACGTcount: A:0.17, C:0.18, G:0.13, T:0.51
Consensus pattern (43 bp):
TTTATCCTTTGTTTACCTATCGGTTCAGTCTTGGGTAAATCCT
Found at i:837 original size:43 final size:43
Alignment explanation
Indices: 645--840 Score: 112
Period size: 43 Copynumber: 4.6 Consensus size: 43
635 TCAATTTTGG
* * * * *
645 GTAAATCCTTTTATCCTTTGTTGACTTGTCAATTTAATCCCGA
1 GTAAATCCTTTTATCCTTTGTTGACCTATCGATTCAATCTCGA
* * * * ** * * *
688 -TCAA-CTTCTTTATCTTTTGTTTACCTAGTCGGCTCAGTCTTGG
1 GTAAATCCT-TTTATCCTTTGTTGACCTA-TCGATTCAATCTCGA
* *
731 GTAAATCCTTTTATCCTTTGTTGACTTATC-AGTTCAATCTTG-
1 GTAAATCCTTTTATCCTTTGTTGACCTATCGA-TTCAATCTCGA
* ** ** * * *
773 GTCAACTTTTTTTATTTTTTGTTTACCTATCGATTTAGTCTCGA
1 GT-AAATCCTTTTATCCTTTGTTGACCTATCGATTCAATCTCGA
817 GTAAATCCTTTTATCCTTTGTTGA
1 GTAAATCCTTTTATCCTTTGTTGA
841 TTTGTCGGTT
Statistics
Matches: 107, Mismatches: 38, Indels: 16
0.66 0.24 0.10
Matches are distributed among these distances:
41 2 0.02
42 20 0.19
43 61 0.57
44 22 0.21
45 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (43 bp):
GTAAATCCTTTTATCCTTTGTTGACCTATCGATTCAATCTCGA
Found at i:919 original size:43 final size:41
Alignment explanation
Indices: 871--1002 Score: 120
Period size: 43 Copynumber: 3.1 Consensus size: 41
861 CAACATCTTT
871 ACTTATCGGCTCAGTCTTGGGTAAATCCTTGTATCCTTTGTTA
1 ACTTATCGGCTCAGTCTT-GGTAAATCCTT-TATCCTTTGTTA
* * * * * *
914 ACTTATCGGTTCAATCCTAGTAAACTTCTTTATCCTTTGTTT
1 ACTTATCGGCTCAGTCTTGGTAAA-TCCTTTATCCTTTGTTA
* * * * *
956 ACTTGTCGGCTTAGTATCAGGTAAATCCTTTTATCCTTTGTTG
1 ACTTATCGGCTCAGTCT-TGGTAAATCC-TTTATCCTTTGTTA
999 ACTT
1 ACTT
1003 GTCAGTTCAA
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 29 0.41
43 41 0.59
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (41 bp):
ACTTATCGGCTCAGTCTTGGTAAATCCTTTATCCTTTGTTA
Found at i:948 original size:42 final size:42
Alignment explanation
Indices: 902--1065 Score: 129
Period size: 42 Copynumber: 3.9 Consensus size: 42
892 TAAATCCTTG
*
902 TATCCTTTGTTAACTTATCGGTTCAATCCTAG-TAAACTTCTT
1 TATCCTTTGTTTACTTATCGGTTCAATCC-AGATAAACTTCTT
* * *
944 TATCCTTTGTTTACTTGTCGGCTT-AGTAT-CAGGTAAA-TCCTTT
1 TATCCTTTGTTTACTTATCGG-TTCA--ATCCAGATAAACTTC-TT
* * * * *
987 TATCCTTTGTTGACTTGTCAGTTCAATCCCGATCAACTTCTT
1 TATCCTTTGTTTACTTATCGGTTCAATCCAGATAAACTTCTT
* * * *
1029 TATCCTTTATTTACCTATCGGTTTAGTCCTAGATAAA
1 TATCCTTTGTTTACTTATCGGTTCAATCC-AGATAAA
1066 TCTTTTATCT
Statistics
Matches: 95, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
41 2 0.02
42 55 0.58
43 36 0.38
44 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (42 bp):
TATCCTTTGTTTACTTATCGGTTCAATCCAGATAAACTTCTT
Found at i:1011 original size:159 final size:161
Alignment explanation
Indices: 707--1030 Score: 438
Period size: 159 Copynumber: 2.0 Consensus size: 161
697 TTATCTTTTG
* * *
707 TTTACCTAGTCGGCTCAGTCTTGGGTAAATCCTTTTATCCTTTGTTGACTTATCAGTTCAATCTT
1 TTTACCTAGTCGGCTCAGTCTTGGGTAAATCCTTGTATCCTTTGTTAACTTATCAGTTCAATCCT
* * * ** * *
772 GGTCAACTTTTTTTATTTTTTGTTTACCTATCGATTTAGTCTCGAGTAAATCCTTTTATCCTTTG
66 AGTAAACTTTCTTTATCCTTTGTTTACCTATCGACTTAGTATCGAGTAAATCCTTTTATCCTTTG
* * **
837 TTGATTTGTCGGTTCAATCTTGATCAACATC
131 TTGACTTGTCAGTTCAATCCCGATCAACATC
* *
868 TTTACTTA-TCGGCTCAGTCTTGGGTAAATCCTTGTATCCTTTGTTAACTTATCGGTTCAATCCT
1 TTTACCTAGTCGGCTCAGTCTTGGGTAAATCCTTGTATCCTTTGTTAACTTATCAGTTCAATCCT
* * *
932 AGTAAAC-TTCTTTATCCTTTGTTTACTTGTCGGCTTAGTATC-AGGTAAATCCTTTTATCCTTT
66 AGTAAACTTTCTTTATCCTTTGTTTACCTATCGACTTAGTATCGA-GTAAATCCTTTTATCCTTT
*
995 GTTGACTTGTCAGTTCAATCCCGATCAACTTC
130 GTTGACTTGTCAGTTCAATCCCGATCAACATC
1027 TTTA
1 TTTA
1031 TCCTTTATTT
Statistics
Matches: 142, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
158 1 0.01
159 77 0.54
160 57 0.40
161 7 0.05
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (161 bp):
TTTACCTAGTCGGCTCAGTCTTGGGTAAATCCTTGTATCCTTTGTTAACTTATCAGTTCAATCCT
AGTAAACTTTCTTTATCCTTTGTTTACCTATCGACTTAGTATCGAGTAAATCCTTTTATCCTTTG
TTGACTTGTCAGTTCAATCCCGATCAACATC
Found at i:3093 original size:50 final size:51
Alignment explanation
Indices: 3029--3142 Score: 176
Period size: 50 Copynumber: 2.3 Consensus size: 51
3019 AACAGGGTTG
*
3029 GAGTTTCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAA-TAGAGTTA
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACTAGAGTTA
* * * *
3079 GAGTATCCTCGATTGTGAAAAATTGATGTTTTTGAAATAAAACTAGGGTTG
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACTAGAGTTA
3130 GAGTATCCCCGAT
1 GAGTATCCCCGAT
3143 GAAATAATGG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 39 0.68
51 18 0.32
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACTAGAGTTA
Found at i:3211 original size:48 final size:51
Alignment explanation
Indices: 3153--3263 Score: 140
Period size: 51 Copynumber: 2.2 Consensus size: 51
3143 GAAATAATGG
* *
3153 GGTTGGAGTATCCCCGATTGT-GAAAA-T-ATATTTTGGAAATAAAATCAGA
1 GGTTGGAGTATCCCCGATTATGGAAAATTGATATTTTAGAAATAAAA-CAGA
* * *
3202 -GTTGGAGTATCCCCGTTTATGGAAAATTGATGTTTTAGAAATAAAACCGA
1 GGTTGGAGTATCCCCGATTATGGAAAATTGATATTTTAGAAATAAAACAGA
3252 GGTTGGAGTATC
1 GGTTGGAGTATC
3264 TCTTTGGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
48 18 0.34
49 5 0.09
50 4 0.08
51 26 0.49
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTGATATTTTAGAAATAAAACAGA
Found at i:3274 original size:127 final size:129
Alignment explanation
Indices: 2978--3298 Score: 359
Period size: 127 Copynumber: 2.5 Consensus size: 129
2968 AAAATTAAAA
* * * * * *
2978 TTTTAGAGATAACAACG-GGGCTGGAGTATCCCCTCA-AAAATAACAGGGTTGGAGTTTCCCCGA
1 TTTTAGAAATAA-AACGAGGGTTGGAGTATCCCC-GATGAAATAACGGGGTTGGAGTATCCCCGA
* * *
3041 TTGTGAAAAATTGATGTTTTGGAAATAAAATAGAGTTAGAGTATCCTCGATTGTGAAAAATTGAT
64 TTGTGAAAAATTGATATTTTGGAAATAAAATAGAGTTAGAGTATCCCCGATTATGAAAAATTGAT
3106 G
129 G
* * *
3107 TTTTTGAAATAAAACTAGGGTTGGAGTATCCCCGATGAAATAATGGGGTTGGAGTATCCCCGATT
1 TTTTAGAAATAAAACGAGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATT
* * *
3172 GTG-AAAA-T-ATATTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGTTTATGGAAAATTGATG
66 GTGAAAAATTGATATTTTGGAAATAAAAT-AGAGTTAGAGTATCCCCGATTATGAAAAATTGATG
* ** * *
3234 TTTTAGAAATAAAACCGA-GGTTGGAGTAT-CTCTTTGGAAATAACGGGGTTTAGAGTATCCTCG
1 TTTTAGAAATAAAA-CGAGGGTTGGAGTATCCCCGAT-GAAATAACGGGG-TTGGAGTATCCCCG
3297 AT
63 AT
3299 GGGGTGTAGA
Statistics
Matches: 163, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
126 20 0.12
127 66 0.40
128 24 0.15
129 53 0.33
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (129 bp):
TTTTAGAAATAAAACGAGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATT
GTGAAAAATTGATATTTTGGAAATAAAATAGAGTTAGAGTATCCCCGATTATGAAAAATTGATG
Found at i:4358 original size:105 final size:105
Alignment explanation
Indices: 4171--4398 Score: 368
Period size: 105 Copynumber: 2.2 Consensus size: 105
4161 AATAAAATGT
* * *
4171 GTCCTGGTCTTTAAGAACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTA
1 GTCCTGCTCTTTAAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCCCTTTGAGGACTA
4236 AGAAGTGCCACCTACTTGTGTGGGCTTTGAAAGAGAAGGC
66 AGAAGTGCCACCTACTTGTGTGGGCTTTGAAAGAGAAGGC
*
4276 GTCCTGCTCTTTAAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACTA
1 GTCCTGCTCTTTAAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCCCTTTGAGGACTA
* * *
4341 GGAGGTGCCA-CTAACTTGTGTGGGCTTTGAAGGAGAAGGC
66 AGAAGTGCCACCT-ACTTGTGTGGGCTTTGAAAGAGAAGGC
*
4381 GTCCTGCTCTTTGAGGAC
1 GTCCTGCTCTTTAAGGAC
4399 TAGAAGGTGC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
104 2 0.02
105 112 0.98
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (105 bp):
GTCCTGCTCTTTAAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCATCCTGCCCTTTGAGGACTA
AGAAGTGCCACCTACTTGTGTGGGCTTTGAAAGAGAAGGC
Found at i:4470 original size:62 final size:60
Alignment explanation
Indices: 4322--5342 Score: 804
Period size: 61 Copynumber: 16.9 Consensus size: 60
4312 ATGAAGTGCA
* * * *
4322 TCCTGCTCTTTGAGGACTAGGAGGTGCCACTAACTTGTGTGGGCTTT-GAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
4382 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * * **
4444 TCCTACTCTTTGAGGACTAAAGGGTGCGACCAACTTGTGTGGGCTTCAAAAGGAAAAGTTG
1 TCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
** * *
4505 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * * * *
4566 TCCTGCTCTTTTAGGACTGAAATGTACCACCAACTTGTGTGGGCTTTAAGAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * * ** *
4627 TCTTACTCTTTGAAGACTGGAAGGTGCCACAAACTTGTGTGGGCTTTGAAAAAAAAAAGACG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * *
4689 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTAGGCTTTAGAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
** * * *** * * * *
4750 TCCTGCTCTTTGAGGAAAAAAGG-G-GA--AA----AGAAAG---T-AATGGAATATGTCT
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA-AAGGCG
* * ** * *** * ** * * ** * *
4799 TGCT-CTTTGACGA-CAGGGAGGTGCCACCAGC--TTGTGTG-GGCTTTGAAAAGAAAAAGGCG
1 TCCTGCTCT-TTGAGGACTAAAG-G-TGCCACCAACT-TGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
4858 TCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * * * *
4919 TCTTACTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAGACG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTT-TAAAAGGAAAAGGCG
* * * * * * *
4981 CCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTCAGAAGGAAAAAGTG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * **
5042 TCCTGCTCTTTGAGGATTGAAATGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * * * *
5104 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTCAGAAGGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * * * *
5165 TCCTGCTTTTTGAGGACTGAAATGTGCCACCAACTCGTGTGGGCTTGAAAAGAAAAAGACG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
5226 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAAATTGTGTAGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
*
5287 TTCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGGAA
1 TCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAA
5343 GAGGATGCCA
Statistics
Matches: 759, Mismatches: 165, Indels: 72
0.76 0.17 0.07
Matches are distributed among these distances:
48 11 0.01
49 10 0.01
52 4 0.01
56 2 0.00
57 1 0.00
58 1 0.00
59 16 0.02
60 84 0.11
61 390 0.51
62 234 0.31
63 6 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:4705 original size:123 final size:122
Alignment explanation
Indices: 4322--5342 Score: 990
Period size: 123 Copynumber: 8.5 Consensus size: 122
4312 ATGAAGTGCA
* * * *
4322 TCCTGCTCTTTGAGGACT-AGGAGGTGCCACTAACTTGTGTGGGCTTT-GAAGGAGAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
*
4385 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCG
65 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCG
* * * **
4444 TCCTACTCTTTGAGGACT-AAAGGGTGCGACCAACTTGTGTGGGCTTCAAAAGGAAAAGTTGTCC
1 TCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
** *
4508 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCA
65 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCG
* * * * * *
4566 TCCTGCTCTTTTAGGACTGAAATGTACCACCAACTTGTGTGGGCTTTAAGAGGAAAAGGCATCTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
* * ** * * *
4631 ACTCTTTGAAGACTGGAAGGTGCCACAAACTTGTGTGGGCTTTGAAAAAAAAAAGACG
66 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCG
* * *
4689 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTAGGCTTTAGAAGGAAAAGGCATCC
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *** * * * *
4753 TGCTCTTTGAGGA-AAAAAGG-G-GA--AA----AGAAAG---T-AATGGAATA--TG
65 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCG
* * * ** * *
4796 TCTTGCTCTTTGACGACAGGGAGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCC
* * * *
4861 TGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAAGGTG
65 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCG
* * * * * * * *
4919 TCTTACTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAGACGCCC
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTT-TAAAAGGAAAAGGCGTCC
* ** * * *
4984 TACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTCAGAAGGAAAAA-GTG
65 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA-AAAGAAAAAGGCG
* * * * **
5042 TCCTGCTCTTTGAGGATTGAAATGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGATGTCC
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCC
** * * *
5107 TGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTCAGAAGGAAAAA-GCA
65 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA-AAAGAAAAAGGCG
* * * * * *
5165 TCCTGCTTTTTGAGGACTGAAATGTGCCACCAACTCGTGTGGGCTTGAAAAGAAAAAGACGTCCT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
* * * *
5230 GCTCTTTGAGGACTAAAGGGTGCCACCAAATTGTGTAGGCTTTAAAAGGAAAAGGCG
66 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCG
*
5287 TTCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGGAA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAA
5343 GAGGATGCCA
Statistics
Matches: 748, Mismatches: 123, Indels: 55
0.81 0.13 0.06
Matches are distributed among these distances:
106 2 0.00
107 38 0.05
108 26 0.03
109 11 0.01
110 1 0.00
111 2 0.00
113 2 0.00
114 2 0.00
117 2 0.00
118 2 0.00
120 2 0.00
121 15 0.02
122 239 0.32
123 394 0.53
124 10 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (122 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCG
Found at i:4914 original size:169 final size:169
Alignment explanation
Indices: 4627--4934 Score: 449
Period size: 169 Copynumber: 1.8 Consensus size: 169
4617 GGAAAAGGCA
*
4627 TCTTACTCTTTGAAGACTGGAAGGTGCCACAAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCC
1 TCTTACTCTTTGAAGACAGGAAGGTGCCACAAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCC
* * *
4692 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTAGGCTTTAGAAGGAAAAGGCATCCTGCT
66 TGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAGAAGGAAAAGGCATCCTACT
4757 CTTTGAGGAAAAAAGGGGAAAAGAAAGTAATGGAATATG
131 CTTTGAGGAAAAAAGGGGAAAAGAAAGTAATGGAATATG
* * * * * * *
4796 TCTTGCTCTTTGACGACAGGGAGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
1 TCTTACTCTTTGAAGACAGGAAGGTGCCACAAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCC
* ** *
4861 TGCTCTTTGAAGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTA-AGAGGAAAAGGTGTCTTA
66 TGCTCTTTGAAGACTGAAAA-GTGCCACCAACTTGTGTAGGCTTTAGA-AGGAAAAGGCATCCTA
4924 CTCTTTGAGGA
129 CTCTTTGAGGA
4935 CTGGAGGGTG
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
168 4 0.03
169 118 0.97
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (169 bp):
TCTTACTCTTTGAAGACAGGAAGGTGCCACAAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCC
TGCTCTTTGAAGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAGAAGGAAAAGGCATCCTACT
CTTTGAGGAAAAAAGGGGAAAAGAAAGTAATGGAATATG
Found at i:6028 original size:19 final size:19
Alignment explanation
Indices: 5981--6020 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
5971 TATTATCAGC
5981 TAAATGATGAATGCAAAGA
1 TAAATGATGAATGCAAAGA
6000 TAAATGATGAATGCAAAGA
1 TAAATGATGAATGCAAAGA
6019 TA
1 TA
6021 TTCTATGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.05, G:0.20, T:0.23
Consensus pattern (19 bp):
TAAATGATGAATGCAAAGA
Found at i:6401 original size:17 final size:16
Alignment explanation
Indices: 6375--6406 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6365 TCTCACCAAG
6375 GTTTTTTGTTTTTTTT
1 GTTTTTTGTTTTTTTT
6391 GTTTGTTTGTTTTTTT
1 GTTT-TTTGTTTTTTT
6407 AGAAGAGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (16 bp):
GTTTTTTGTTTTTTTT
Found at i:8425 original size:290 final size:290
Alignment explanation
Indices: 7905--8482 Score: 1120
Period size: 290 Copynumber: 2.0 Consensus size: 290
7895 AGGCGGGCAT
**
7905 GGTGTATTTGGGTAAAAGAGATTAGGCCTCTGGCATTGTCTAGGTGGAAGCGGGTTGACATAATT
1 GGTGTATTTGGGTAAAAGAGATTAGGCCTCTGGCATTGTCTAGGCAGAAGCGGGTTGACATAATT
7970 GACGGCGTTGGCCTCTCCTTCCTTTTTTTAGTATCGACAGGCTTCTTGCTTAACCCTAATGATTA
66 GACGGCGTTGGCCTCTCCTTCCTTTTTTTAGTATCGACAGGCTTCTTGCTTAACCCTAATGATTA
*
8035 TCCTATAGATATTCTGCCACATTTAATAGCACTGTCAATCATCTCCCCTAATATGACAATATTAG
131 TCCTATAGATATTCTGCCACATTTAATAGCACTGTCAATCATCTCCCCTAATATGACAATATCAG
8100 TAAAATTTTTTGTCGCATTTCCCACCAACTTTTCATAATAAGGAGCCCGCAAAGTATTGACAAAC
196 TAAAATTTTTTGTCGCATTTCCCACCAACTTTTCATAATAAGGAGCCCGCAAAGTATTGACAAAC
8165 ATGACTCTCATTTCCTTCTCAGTCAAAGAG
261 ATGACTCTCATTTCCTTCTCAGTCAAAGAG
*
8195 GGTGTATTTGGGTAAAAGAGATTAGGCCTCTGGCATTGTCTAGGCAGAAGCGGGTTGATATAATT
1 GGTGTATTTGGGTAAAAGAGATTAGGCCTCTGGCATTGTCTAGGCAGAAGCGGGTTGACATAATT
8260 GACGGCGTTGGCCTCTCCTTCCTTTTTTTAGTATCGACAGGCTTCTTGCTTAACCCTAATGATTA
66 GACGGCGTTGGCCTCTCCTTCCTTTTTTTAGTATCGACAGGCTTCTTGCTTAACCCTAATGATTA
8325 TCCTATAGATATTCTGCCACATTTAATAGCACTGTCAATCATCTCCCCTAATATGACAATATCAG
131 TCCTATAGATATTCTGCCACATTTAATAGCACTGTCAATCATCTCCCCTAATATGACAATATCAG
8390 TAAAATTTTTTGTCGCATTTCCCACCAACTTTTCATAATAAGGAGCCCGCAAAGTATTGACAAAC
196 TAAAATTTTTTGTCGCATTTCCCACCAACTTTTCATAATAAGGAGCCCGCAAAGTATTGACAAAC
8455 ATGACTCTCATTTCCTTCTCAGTCAAAG
261 ATGACTCTCATTTCCTTCTCAGTCAAAG
8483 GAGGATGAAC
Statistics
Matches: 284, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
290 284 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (290 bp):
GGTGTATTTGGGTAAAAGAGATTAGGCCTCTGGCATTGTCTAGGCAGAAGCGGGTTGACATAATT
GACGGCGTTGGCCTCTCCTTCCTTTTTTTAGTATCGACAGGCTTCTTGCTTAACCCTAATGATTA
TCCTATAGATATTCTGCCACATTTAATAGCACTGTCAATCATCTCCCCTAATATGACAATATCAG
TAAAATTTTTTGTCGCATTTCCCACCAACTTTTCATAATAAGGAGCCCGCAAAGTATTGACAAAC
ATGACTCTCATTTCCTTCTCAGTCAAAGAG
Found at i:12114 original size:19 final size:20
Alignment explanation
Indices: 12069--12120 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
12059 TTACAAGCCA
*
12069 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATCTTGGG
*
12089 ATGTATCGATACATCTTGTG
1 ATGTATCGATACATCTTGGG
12109 -TGTATCGATACA
1 ATGTATCGATACA
12121 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATCTTGGG
Found at i:12209 original size:20 final size:21
Alignment explanation
Indices: 12162--12214 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
12152 GCCAATGACC
*
12162 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
12183 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
12203 TGTATCGATACA
1 TGTATCGATACA
12215 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:12220 original size:13 final size:13
Alignment explanation
Indices: 12202--12226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12192 ACATTTGGTC
12202 ATGTATCGATACA
1 ATGTATCGATACA
12215 ATGTATCGATAC
1 ATGTATCGATAC
12227 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:14933 original size:8 final size:8
Alignment explanation
Indices: 14920--14953 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
14910 AACATCATTC
14920 ATCACAAA
1 ATCACAAA
14928 ATCACAAA
1 ATCACAAA
14936 ATCACAAA
1 ATCACAAA
14944 ATCACAAA
1 ATCACAAA
14952 AT
1 AT
14954 TTAATCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:18611 original size:13 final size:13
Alignment explanation
Indices: 18593--18618 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18583 ATAATCACCC
18593 TGTATCGATACAA
1 TGTATCGATACAA
18606 TGTATCGATACAA
1 TGTATCGATACAA
18619 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:22554 original size:21 final size:21
Alignment explanation
Indices: 22525--22569 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22515 AAGTTTTCAT
*
22525 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
22545 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
22567 TTT
1 TTT
22570 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:32347 original size:51 final size:51
Alignment explanation
Indices: 32287--32383 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
32277 AACGGGGTTG
32287 GAGTATCCCCGATTGCGAAAAAATGATGTTTTAGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGCGAAAAAATGATGTTTTAGAAATAAAATCGGAGTTA
* *
32338 GAGTATCCCCGATTGTGAAAAACTGATGTTTTAGAAATAAAATCGG
1 GAGTATCCCCGATTGCGAAAAAATGATGTTTTAGAAATAAAATCGG
32384 GTTTGAAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (51 bp):
GAGTATCCCCGATTGCGAAAAAATGATGTTTTAGAAATAAAATCGGAGTTA
Found at i:32394 original size:51 final size:50
Alignment explanation
Indices: 32281--32394 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 50
32271 AGAAATAACG
*
32281 GGGTTGGAGTATCCCCGATTGCGAAAAAATGATGTTTTAGAAATAAAATC
1 GGGTTTGAGTATCCCCGATTGCGAAAAAATGATGTTTTAGAAATAAAATC
* * *
32331 GGAGTTAGAGTATCCCCGATTGTGAAAAACTGATGTTTTAGAAATAAAATC
1 GG-GTTTGAGTATCCCCGATTGCGAAAAAATGATGTTTTAGAAATAAAATC
32382 GGGTTTGAAGTAT
1 GGGTTTG-AGTAT
32395 TCCTTTGGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
50 6 0.10
51 52 0.90
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (50 bp):
GGGTTTGAGTATCCCCGATTGCGAAAAAATGATGTTTTAGAAATAAAATC
Found at i:32456 original size:130 final size:129
Alignment explanation
Indices: 32251--32608 Score: 457
Period size: 130 Copynumber: 2.8 Consensus size: 129
32241 GAGATAACAA
* * * * *
32251 CGGGGCTGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTGCGAAAAAATGATGT
1 CGGGG-TGAAGTATCCCTTTCGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGT
*
32316 TTTAGAAATAAAATCGGAGTTAGAGTATCCCCGATTGTGAAAAACTGATGTTTTAGAAATAAAAT
65 TTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTGTGAAAAACTGATGTTTTAGAAATAAAAT
* * * *
32381 CGGGTTTGAAGTATTCCTTTGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATAT
1 CGGG-GTGAAGTATCCCTTTCGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGT
*** * * *
32446 TTTGGAAATAAAATCGGAGTTAGAGTATCCATAATTGTGGAAAATTGATGTTTTAGAATTAAAAT
65 TTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTGTGAAAAACTGATGTTTTAGAAATAAAAT
* * * * * * *
32511 CGGGGTGGAGTATCCCTTTCGAAATAACAGGGTTTAGAGTATCCTCGATGGTGGAAAATCGATGT
1 CGGGGTGAAGTATCCCTTTCGAAATAAC-GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGT
*
32576 TTTGGAAATAAAATC-GAGATTGGAGTATCCCCG
65 TTTGGAAATAAAATCGGAG-TTAGAGTATCCCCG
32609 CGAAAATAAT
Statistics
Matches: 195, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
129 23 0.12
130 172 0.88
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (129 bp):
CGGGGTGAAGTATCCCTTTCGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTT
TTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTGTGAAAAACTGATGTTTTAGAAATAAAAT
Found at i:32613 original size:79 final size:79
Alignment explanation
Indices: 32464--32667 Score: 216
Period size: 79 Copynumber: 2.6 Consensus size: 79
32454 TAAAATCGGA
* * * *
32464 GTTAGAGTATCCAT-AATTGTGGAAAATTGATGTTTTAGAATTAAAATCGGGGTGGAGTATCCCT
1 GTTAGAGTATCC-TCGATTGTGGAAAATTGATGTTTTGGAAATAAAATCGGAGTGGAGTATCCCT
**
32528 TTCG-AAATAACAGGG
65 CGCGAAAATAA-AGGG
* * * *
32543 TTTAGAGTATCCTCGATGGTGGAAAATCGATGTTTTGGAAATAAAATCGAGATTGGAGTATCCC-
1 GTTAGAGTATCCTCGATTGTGGAAAATTGATGTTTTGGAAATAAAATCG-GAGTGGAGTATCCCT
*
32607 CGCGAAAATAATGGG
65 CGCGAAAATAAAGGG
* * ** *
32622 GTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTGGAAATAAAA
1 GTTAGAGTATCCTCGATTGTGGAAAATTGATGTTTTGGAAATAAAA
32668 ACATGAATGA
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
78 1 0.01
79 84 0.82
80 18 0.17
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (79 bp):
GTTAGAGTATCCTCGATTGTGGAAAATTGATGTTTTGGAAATAAAATCGGAGTGGAGTATCCCTC
GCGAAAATAAAGGG
Found at i:35105 original size:42 final size:42
Alignment explanation
Indices: 35040--35136 Score: 187
Period size: 42 Copynumber: 2.3 Consensus size: 42
35030 TACATTGCAA
35040 AATGTATCGATA-ATCTGGGTAAACCCAGAATGTATCAATAC
1 AATGTATCGATACATCTGGGTAAACCCAGAATGTATCAATAC
35081 AATGTATCGATACATCTGGGTAAACCCAGAATGTATCAATAC
1 AATGTATCGATACATCTGGGTAAACCCAGAATGTATCAATAC
35123 AATGTATCGATACA
1 AATGTATCGATACA
35137 ATGAGAAATG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 12 0.22
42 43 0.78
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (42 bp):
AATGTATCGATACATCTGGGTAAACCCAGAATGTATCAATAC
Found at i:35128 original size:13 final size:13
Alignment explanation
Indices: 35110--35139 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
35100 GTAAACCCAG
35110 AATGTATCAATAC
1 AATGTATCAATAC
*
35123 AATGTATCGATAC
1 AATGTATCAATAC
35136 AATG
1 AATG
35140 AGAAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:35148 original size:20 final size:20
Alignment explanation
Indices: 35121--35177 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
35111 ATGTATCAAT
35121 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
35141 GA-AATGTATCGATACAATGA
1 -ACAATGTATCGATACAATGA
35161 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
35178 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:36072 original size:43 final size:43
Alignment explanation
Indices: 36025--36153 Score: 125
Period size: 43 Copynumber: 2.9 Consensus size: 43
36015 GCGAAGGAGA
* *
36025 AAAAGAAAATAAAATACGTCCTATTCTTTGAGGACAAAAGAGG
1 AAAAGAAAATAAAATGCGTCCTACTCTTTGAGGACAAAAGAGG
* ** * * *
36068 AAAAGAGGGGAATGGAATGTGTCCTACTCTTTGAGGAC-AAGGGGG
1 AAAAGA---AAATAAAATGCGTCCTACTCTTTGAGGACAAAAGAGG
* *
36113 AAAAGGAAAATAAAGTGCATCCTACTCTTTGAGGACAAAAG
1 AAAA-GAAAATAAAATGCGTCCTACTCTTTGAGGACAAAAG
36154 GGAGAAAAAG
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
43 29 0.44
44 3 0.05
45 9 0.14
46 25 0.38
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (43 bp):
AAAAGAAAATAAAATGCGTCCTACTCTTTGAGGACAAAAGAGG
Found at i:36319 original size:105 final size:105
Alignment explanation
Indices: 36130--36358 Score: 363
Period size: 105 Copynumber: 2.2 Consensus size: 105
36120 AAATAAAGTG
*
36130 CATCCTACTCTTTGAGGACAAAAGGGAGAAAAAGGAAATGAAGTGTGCCCTGCCCTTTGAGGACT
1 CATCCTACTCTTTGAGGACAAAAGGGAGAAAAAGGAAATGAAGTGTGCCCTGCCCTTTAAGGACT
*
36195 AGGAGGTGCCACGAACTTGTGTGGGCTTTGAAAGAGAAGA
66 AGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAGA
* * *
36235 CGTCC-AGCTCTTTGAGGACAAAAGGGA-AAAGAAGGAAATGAAGTGTGTCCTGCTCTTTAAGGA
1 CATCCTA-CTCTTTGAGGACAAAAGGGAGAAA-AAGGAAATGAAGTGTGCCCTGCCCTTTAAGGA
* *
36298 CTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGG
64 CTAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAGA
36340 CATCCTACTCTTTGAGGAC
1 CATCCTACTCTTTGAGGAC
36359 TAGAAGGTGC
Statistics
Matches: 113, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
104 4 0.04
105 108 0.96
106 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (105 bp):
CATCCTACTCTTTGAGGACAAAAGGGAGAAAAAGGAAATGAAGTGTGCCCTGCCCTTTAAGGACT
AGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAGAAGA
Found at i:36445 original size:62 final size:61
Alignment explanation
Indices: 36281--36673 Score: 447
Period size: 62 Copynumber: 6.4 Consensus size: 61
36271 AATGAAGTGT
* * * * * *
36281 GTCCTGCTCTTTAAGGACT-AGGAGGTGCCACCAACTTGTGTGGGCTTT-GAAGGAGAAGGC
1 GTCCTACTCTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
* *
36341 ATCCTACTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGT
1 GTCCTACTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGC
* * * *
36403 GTCCTCCTCTTTGAGGACTAAAGGGTCCCACCAACTTCTGTGGGCTTTGAAAAGAAAAAGGT
1 GTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGC
* * * * *
36465 GTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACATGTGTGGGCTTTAAGAGGAAAACGC
1 GTCCTACTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
** *
36526 GTCCTACTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGAC
1 GTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGC
* *
36588 GTCCTACTCTTTGAGGATTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAGAAGGAAAAA-GC
1 GTCCTACTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTA-AAAGAAAAAGGC
* * *
36649 ATCCTGCTCTTTGAGGACAAAAGGG
1 GTCCTACTCTTTGAGGACTAAAGGG
36674 GAAAAGAAGG
Statistics
Matches: 284, Mismatches: 38, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
60 45 0.16
61 72 0.25
62 163 0.57
63 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (61 bp):
GTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
Found at i:36576 original size:123 final size:124
Alignment explanation
Indices: 36281--37121 Score: 810
Period size: 123 Copynumber: 7.0 Consensus size: 124
36271 AATGAAGTGT
* * * * *
36281 GTCCTGCTCTTTAAGGACT-AGGAGGTGCCACCAACTTGTGTGGGCTTTG--AAGGAGAAGGCAT
1 GTCCTGCTCTTTGAGGACTGAAG-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGT
* * *
36343 CCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGT
65 CCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
36403 GTCCTCCTCTTTGAGGACTAAAGGGTCCCACCAACTTCTGTGGGCTTTGAAAAGAAAAAGGTGTC
1 GTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * *
36468 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACATGTGTGGGCTTT-AAGAGGAAAACGC
66 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
* * *
36526 GTCCTACTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTC
1 GTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * *
36591 CTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AGAAGGAAAAA-GC
66 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGA-AAAGAAAAAGGC
* ** * ** * * * *
36649 ATCCTGCTCTTTGAGGACAAAAGGG-G--A--AA----AGAAGG----G-AATG--GAATGTGTC
1 GTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* *
36698 CTGCTCTTTGAGGACA-AGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
66 CTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * *
36757 ATCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * * * *
36821 CTACTTTTTGAGAACTGAAGGGTGTCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAGC
66 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * *
36880 ATCCTGCTCTTTGAGGACCGGAA-GGTGCCACCAACTTATGTGGGC-TTCAGAAGCAAAAA-GTG
1 GTCCTGCTCTTTGAGGA-CTGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAAGGCG
* * *
36942 TCCTGCTCTTTGAGGACTGAAATGTGCCACCAACTCGTGTAGGC-TTGAAAAGAAAAAGGC
64 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
* * *
37002 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTAGGCTTT-AAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * *
37066 TTGCT-TTTCGAGGATTGGAAA-GTACCACTAACTTGTGTGGGCTTTGAAAATGAAAA
66 CTGCTCTTT-GAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAA
37122 GTATGCCACT
Statistics
Matches: 586, Mismatches: 98, Indels: 68
0.78 0.13 0.09
Matches are distributed among these distances:
106 1 0.00
107 52 0.09
108 23 0.04
109 4 0.01
110 1 0.00
111 1 0.00
113 2 0.00
114 3 0.01
117 3 0.01
118 2 0.00
120 1 0.00
121 12 0.02
122 130 0.22
123 279 0.48
124 71 0.12
125 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (124 bp):
GTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTC
CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
Found at i:36743 original size:292 final size:292
Alignment explanation
Indices: 36401--36958 Score: 868
Period size: 292 Copynumber: 1.9 Consensus size: 292
36391 AAAGAAAAAG
**
36401 GTGTCCTCCTCTTTGAGGACTAAAGGGTCCCACCAACTTCTGTGGGCTTTGAAAAGAAAAAGGTG
1 GTGTCCTCCTCTTTGAGGACTAAAGGGTCCCACCAACTTCTGTGGGCTTTGAAAAGAAAAAGGCA
* *
36466 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACATGTGTGGGCTTTAAGAGGAAAACGCGTCCT
66 TCCTACTCTTTAAGGACTGAAAGGTGCCACCAACATGTGTGGGCTTTAAGAGGAAAACGCGTCCT
* * *
36531 ACTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAAGACGTCCTAC
131 ACTCTTTGAGAACTGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAG-CATCCTAC
** * * *
36595 TCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAGGAAAAAGCATCCTGCTCTT
195 TCTTTGAGGACCGAAAGGTGCCACCAACTTATGTGGGCTTCAGAAGCAAAAAGCATCCTGCTCTT
36660 TGAGGACAAAAGGGGAAAAGAAGGGAATGGAAT
260 TGAGGACAAAAGGGGAAAAGAAGGGAATGGAAT
* * * *
36693 GTGTCCTGCTCTTTGAGGAC-AAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
1 GTGTCCTCCTCTTTGAGGACTAAAG-GGTCCCACCAACTTCTGTGGGCTTTGAAAAGAAAAAGGC
* *
36757 ATCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAAGGCGTCC
65 ATCCTACTCTTTAAGGACTGAAAGGTGCCACCAACATGTGTGGGCTTTAAGAGGAAAACGCGTCC
* * *
36822 TACTTTTTGAGAACTGAAGGGTGTCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAGCATCCTGC
130 TACTCTTTGAGAACTGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAGCATCCTAC
* **
36887 TCTTTGAGGACCGGAAGGTGCCACCAACTTATGTGGGCTTCAGAAGCAAAAAGTGTCCTGCTCTT
195 TCTTTGAGGACCGAAAGGTGCCACCAACTTATGTGGGCTTCAGAAGCAAAAAGCATCCTGCTCTT
36952 TGAGGAC
260 TGAGGAC
36959 TGAAATGTGC
Statistics
Matches: 240, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
291 3 0.01
292 231 0.96
293 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (292 bp):
GTGTCCTCCTCTTTGAGGACTAAAGGGTCCCACCAACTTCTGTGGGCTTTGAAAAGAAAAAGGCA
TCCTACTCTTTAAGGACTGAAAGGTGCCACCAACATGTGTGGGCTTTAAGAGGAAAACGCGTCCT
ACTCTTTGAGAACTGAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAGCATCCTACT
CTTTGAGGACCGAAAGGTGCCACCAACTTATGTGGGCTTCAGAAGCAAAAAGCATCCTGCTCTTT
GAGGACAAAAGGGGAAAAGAAGGGAATGGAAT
Found at i:36814 original size:169 final size:169
Alignment explanation
Indices: 36526--36832 Score: 492
Period size: 169 Copynumber: 1.8 Consensus size: 169
36516 AGGAAAACGC
* *
36526 GTCCTACTCTTTGAGGACTGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACGTC
1 GTCCTACTCTTTGAGGACAGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACATC
* * *
36591 CTACTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAGGAAAAAGCATCCTGC
66 CTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAGGAAAAAGCATCCTAC
36656 TCTTTGAGGACAAAAGGGGAAAAGAAGGGAATGGAATGT
131 TCTTTGAGGACAAAAGGGGAAAAGAAGGGAATGGAATGT
* *
36695 GTCCTGCTCTTTGAGGACAAGGA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCAT
1 GTCCTACTCTTTGAGGAC-AGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACAT
* *
36759 CCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTA-AGAGGAAAAGGCGTCCT
65 CCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGA-AGGAAAAAGCATCCT
*
36823 ACTTTTTGAG
129 ACTCTTTGAG
36833 AACTGAAGGG
Statistics
Matches: 126, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
168 1 0.01
169 122 0.97
170 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (169 bp):
GTCCTACTCTTTGAGGACAGGAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGACATC
CTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAGGAAAAAGCATCCTAC
TCTTTGAGGACAAAAGGGGAAAAGAAGGGAATGGAATGT
Found at i:36850 original size:61 final size:61
Alignment explanation
Indices: 36695--37121 Score: 470
Period size: 61 Copynumber: 6.9 Consensus size: 61
36685 AATGGAATGT
36695 GTCCTGCTCTTTGAGGAC--AAGGAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAA--AGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGC
* * * * *
36757 ATCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
* * * * * *
36818 GTCCTACTTTTTGAGAACTGAAGGGTGTCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGC
* * * * * * *
36880 ATCCTGCTCTTTGAGGACCGGAAGGTGCCACCAACTTATGTGGGCTTCAGAAGCAAAAA-GT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAAGGC
* * * *
36941 GTCCTGCTCTTTGAGGACTGAAATGTGCCACCAACTCGTGTAGGCTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
* *
37002 GTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
* * * *
37063 GTCTTGCT-TTTCGAGGATTGGAAA-GTACCACTAACTTGTGTGGGCTTTGAAAATGAAAA
1 GTCCTGCTCTTT-GAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAA-GAAAA
37122 GTATGCCACT
Statistics
Matches: 308, Mismatches: 46, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
60 11 0.04
61 190 0.62
62 98 0.32
63 7 0.02
64 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
Found at i:38156 original size:15 final size:15
Alignment explanation
Indices: 38135--38172 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
38125 TCTCACCAAG
*
38135 GTTTTTTGTTT-TTC
1 GTTTTTTTTTTGTTC
*
38149 GTTTTTTTTTTGTTT
1 GTTTTTTTTTTGTTC
38164 GTTTTTTTT
1 GTTTTTTTT
38173 AGAAGAGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (15 bp):
GTTTTTTTTTTGTTC
Found at i:38771 original size:20 final size:20
Alignment explanation
Indices: 38748--38806 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
38738 GCTTTGTATC
38748 ATTACATTGTATCGATACAT
1 ATTACATTGTATCGATACAT
*
38768 ATTA-ATTATATCGATACAT
1 ATTACATTGTATCGATACAT
**
38787 -GGACAATTGTATCGATACAT
1 ATTAC-ATTGTATCGATACAT
38807 GAGATTGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 1 0.03
19 14 0.42
20 18 0.55
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (20 bp):
ATTACATTGTATCGATACAT
Found at i:38807 original size:20 final size:20
Alignment explanation
Indices: 38753--38808 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
38743 GTATCATTAC
*
38753 ATTGTATCGATACAT-ATTA
1 ATTGTATCGATACATGATCA
*
38772 ATTATATCGATACATGGA-CA
1 ATTGTATCGATACAT-GATCA
38792 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
38809 GATTGGTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.50
20 15 0.47
21 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGATCA
Found at i:44297 original size:20 final size:20
Alignment explanation
Indices: 44252--44303 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
44242 GTATCCAAAC
**
44252 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
44272 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
44291 TTGTATCGATACA
1 TTGTATCGATACA
44304 TGGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:46536 original size:21 final size:21
Alignment explanation
Indices: 46503--46552 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
46493 TTGCAAGTTG
*
46503 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
46525 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
46546 AAATAAA
1 AAATAAA
46553 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:50212 original size:13 final size:13
Alignment explanation
Indices: 50194--50218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50184 CATAAAGTGT
50194 TGTATCGATACAA
1 TGTATCGATACAA
50207 TGTATCGATACA
1 TGTATCGATACA
50219 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:50234 original size:32 final size:33
Alignment explanation
Indices: 50174--50239 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
50164 TTTAACAATT
50174 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
** *
50207 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
50239 T
1 T
50240 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:50298 original size:13 final size:13
Alignment explanation
Indices: 50280--50304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50270 GTTACTCAAA
50280 TGTATCGATACAT
1 TGTATCGATACAT
50293 TGTATCGATACA
1 TGTATCGATACA
50305 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:50371 original size:52 final size:52
Alignment explanation
Indices: 50315--50430 Score: 187
Period size: 52 Copynumber: 2.2 Consensus size: 52
50305 CTGATCTTTG
*
50315 TATCGATACATGCAGGCAAATTTGCCCAGATGCATCGATACATTATAAAATA
1 TATCGATACATGCAGGCAAATTTGCCCAGATGCATCGATACACTATAAAATA
* * * *
50367 TATCGATACATTCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGCATCGATACACTATAAAATA
50419 TATCGATACATG
1 TATCGATACATG
50431 TAGATTTCGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (52 bp):
TATCGATACATGCAGGCAAATTTGCCCAGATGCATCGATACACTATAAAATA
Found at i:57365 original size:12 final size:11
Alignment explanation
Indices: 57349--57380 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
57339 AAACAAAATT
57349 CAAAAAAAAAA
1 CAAAAAAAAAA
57360 CAAAAAAAAAA
1 CAAAAAAAAAA
57371 CAAAAAAAAA
1 CAAAAAAAAA
57381 GAAGAAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:58673 original size:32 final size:32
Alignment explanation
Indices: 58601--58933 Score: 185
Period size: 32 Copynumber: 9.9 Consensus size: 32
58591 AAATCTCTTC
*
58601 TCAAAGCCCACGACTCAGTGGCAAT-CTCTTC-
1 TCAAAGCCCACGACTCAGTGGC-ATCCTTTTCT
*
58632 TCAAAGTCCACGACTCAGTGGCATCCTTTTCT
1 TCAAAGCCCACGACTCAGTGGCATCCTTTTCT
* *
58664 TCAAAGTCCACGACTCAGTGACATCCTTTTCT
1 TCAAAGCCCACGACTCAGTGGCATCCTTTTCT
*
58696 TCAAAGCCCACAACTTC-GTGGCA-CCATTTTCTTT
1 TCAAAGCCCACGAC-TCAGTGGCATCC-TTTTC--T
* * * *
58730 TTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTT
1 TCAAAGCCCACGACTCAGTGGCA-TC-CTTTT-C--T
* * *
58767 TCAAAGCCCACCACTCCGTGGCA-CTTTTTCTTT
1 TCAAAGCCCACGACTCAGTGGCATCCTTTTC--T
* * * *
58800 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTT
1 TCAAAGCCCACGACTCAGTGGCA-TC-CTTT-TC--T
* * * *
58837 TCAAAGCCTACAACTCCGTGGCACTCTTTTTCCCTT
1 TCAAAGCCCACGACTCAGTGGCA-TCCTTTT--C-T
* * *
58873 TTAAAGTCCACGACTCCGTGGCA-CCTTCTT-T
1 TCAAAGCCCACGACTCAGTGGCATCCTT-TTCT
* * *
58904 TCAAAGCCCACAACTCCGTGGCACCCTTTT
1 TCAAAGCCCACGACTCAGTGGCATCCTTTT
58934 AAGCTCACAA
Statistics
Matches: 261, Mismatches: 22, Indels: 38
0.81 0.07 0.12
Matches are distributed among these distances:
30 2 0.01
31 51 0.20
32 57 0.22
33 29 0.11
34 28 0.11
35 5 0.02
36 34 0.13
37 55 0.21
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (32 bp):
TCAAAGCCCACGACTCAGTGGCATCCTTTTCT
Found at i:58776 original size:37 final size:34
Alignment explanation
Indices: 58627--58976 Score: 288
Period size: 37 Copynumber: 10.5 Consensus size: 34
58617 AGTGGCAATC
* * * *
58627 TCTTCTCAAAGTCCACGACTCAGTGGCATCC-TTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCA-CCTTTT
* * * *
58661 TC--TTCAAAGTCCACGACTCAGTGACATCC-TTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCA-CCTTTT
* *
58693 TC--TTCAAAGCCCACAACTTCGTGGCACCATTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
*
58725 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-C-TTTT
*
58761 TCCTTTTCAAAGCCCACCACTCCGTGGCA-CTTTT
1 T-CTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
*
58795 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-C-TTTT
*
58831 CTCTTTTCAAAGCCTACAACTCCGTGGCACTCTTTT
1 -TCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
* *
58867 TCCCTTTT-AAAGTCCACGACTCCGTGGCACC---T
1 T--CTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
58899 TCTTTTCAAAGCCCACAACTCCGTGGCACC----
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* *
58929 -CTTTT--AAGCTCACAACTCCGTGGCACCTTTC
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
*
58960 TC-CTTCTAAAGCCCACA
1 TCTTTTC-AAAGCCCACA
58977 CAAGTCGGTG
Statistics
Matches: 271, Mismatches: 24, Indels: 42
0.80 0.07 0.12
Matches are distributed among these distances:
27 21 0.08
29 5 0.02
30 5 0.02
31 25 0.09
32 57 0.21
33 25 0.09
34 38 0.14
35 5 0.02
36 31 0.11
37 59 0.22
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (34 bp):
TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
Found at i:58811 original size:70 final size:70
Alignment explanation
Indices: 58695--58976 Score: 333
Period size: 70 Copynumber: 4.2 Consensus size: 70
58685 CATCCTTTTC
* *
58695 TTCAAAGCCCACAACTTCGTGGCACCATTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTC-TTT
58760 TTCCTT
65 TTCCTT
*
58766 TTCAAAGCCCACCACTCCGTGGCA-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
58830 TCTCTT
66 TC-CTT
* * * *
58836 TTCAAAGCCTACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACGACTCCGTGGCAC-C--
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTTAAAGCCCACAACTCCGTGGCACTCTT
58898 -TT-CTT
64 TTTCCTT
* *
58903 TTCAAAGCCCACAACTCCGTGGCACC-----C-TTTT-AAGCTCACAACTCCGTGGCAC-CTTTC
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
58960 TCCTT
66 TCCTT
*
58965 CT-AAAGCCCACA
1 TTCAAAGCCCACA
58977 CAAGTCGGTG
Statistics
Matches: 189, Mismatches: 14, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
58 19 0.10
59 4 0.02
60 1 0.01
61 11 0.06
62 4 0.02
66 1 0.01
67 27 0.14
69 8 0.04
70 60 0.32
71 22 0.12
72 7 0.04
73 25 0.13
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (70 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
TCCTT
Found at i:58823 original size:104 final size:103
Alignment explanation
Indices: 58695--58933 Score: 347
Period size: 104 Copynumber: 2.3 Consensus size: 103
58685 CATCCTTTTC
*
58695 TTCAAAGCCCACAACTTCGTGGCACCATTTTCT-TTTT-AAAGCCCACAACTCCGTGGCACTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCATTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACTCTT
* *
58758 TTTTCCTTTTCAAAGCCCACCACTCCGTGGCACTTTTTCTT
66 TTTCCCTTTT-AAAGCCCACCACTCCGTGGCAC--CTTCTT
* * *
58799 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCTACAACTCCGTGGCACTCT
1 TTCAAAGCCCACAACTCCGTGGCAC-CATTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACTCT
* *
58864 TTTTCCCTTTTAAAGTCCACGACTCCGTGGCACCTTCTT
65 TTTTCCCTTTTAAAGCCCACCACTCCGTGGCACCTTCTT
*
58903 TTCAAAGCCCACAACTCCGTGGCACCCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCATTTT
58934 AAGCTCACAA
Statistics
Matches: 122, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
103 5 0.04
104 52 0.43
105 7 0.06
106 24 0.20
107 34 0.28
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (103 bp):
TTCAAAGCCCACAACTCCGTGGCACCATTTTCTCTTTTCAAAGCCCACAACTCCGTGGCACTCTT
TTTCCCTTTTAAAGCCCACCACTCCGTGGCACCTTCTT
Found at i:58899 original size:27 final size:27
Alignment explanation
Indices: 58868--58955 Score: 106
Period size: 31 Copynumber: 3.1 Consensus size: 27
58858 CACTCTTTTT
*
58868 CCCTTTTAAAGTCCACGACTCCGTGGCA
1 CCCTTTTAAAG-CCACAACTCCGTGGCA
58896 CCTTCTTTTCAAAGCCCACAACTCCGTGGCA
1 CC--CTTTT-AAAG-CCACAACTCCGTGGCA
58927 CCCTTTT-AAGCTCACAACTCCGTGGCA
1 CCCTTTTAAAGC-CACAACTCCGTGGCA
58954 CC
1 CC
58956 TTTCTCCTTC
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.02
27 20 0.37
28 2 0.04
29 5 0.09
30 5 0.09
31 21 0.39
ACGTcount: A:0.22, C:0.39, G:0.15, T:0.25
Consensus pattern (27 bp):
CCCTTTTAAAGCCACAACTCCGTGGCA
Found at i:59110 original size:43 final size:43
Alignment explanation
Indices: 59043--59316 Score: 341
Period size: 43 Copynumber: 6.1 Consensus size: 43
59033 GCACCTTCAT
*
59043 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
59086 CTTTAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
59133 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
59178 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
* *
59222 TTTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
59270 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
59313 CTTT
1 CTTT
59317 TCCATCTTTA
Statistics
Matches: 199, Mismatches: 20, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
43 120 0.60
44 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 75 0.38
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:59159 original size:92 final size:92
Alignment explanation
Indices: 58992--59369 Score: 612
Period size: 92 Copynumber: 4.1 Consensus size: 92
58982 CGGTGGCAAC
*
58992 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
59057 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGACA
* * * *
59085 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAACATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
59150 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGACA
* **
59177 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
59242 AGCTGGCCTTGAATCAGCACATTGACA
66 AGCTGGCCTTGAATCAGCACATTGACA
*
59269 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAA
59334 TGTAGCTGGCCTTGAATCAGCACATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGACA
59364 TCCTTT
1 -CCTTT
59370 TTCTCATCTT
Statistics
Matches: 266, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
92 213 0.80
93 4 0.02
94 2 0.01
95 42 0.16
96 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGACA
Found at i:59348 original size:52 final size:53
Alignment explanation
Indices: 59270--59423 Score: 186
Period size: 52 Copynumber: 2.9 Consensus size: 53
59260 ACATTGACAC
59270 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
59322 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
59377 CTTTAAG-CCTAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
59424 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 7 0.08
55 35 0.41
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:59481 original size:67 final size:68
Alignment explanation
Indices: 59373--59499 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 68
59363 ATCCTTTTTC
* * *
59373 TCATCTTTAAGCCTAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCTAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
59437 TCA
66 TCA
* * *
59440 TCATCTTTAAGTCC-AATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAG-CCTAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
59500 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
67 46 0.88
68 6 0.12
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCTAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCA
Found at i:60415 original size:13 final size:13
Alignment explanation
Indices: 60397--60421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60387 GTTACTCAAA
60397 TGTATCGATACAT
1 TGTATCGATACAT
60410 TGTATCGATACA
1 TGTATCGATACA
60422 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:60472 original size:52 final size:53
Alignment explanation
Indices: 60410--60547 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 53
60400 ATCGATACAT
***
60410 TGTATCGATACACTGAT-CTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
60462 TGTATCGATACA-TTATAAAATGTATCGATACATTCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
60514 TGTATCGATACACT-ATTAAATGTATCGATACATG
1 TGTATCGATACACTGATAAAATGTATCGATACATG
60548 TAGATTTCGG
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
51 3 0.04
52 73 0.95
53 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (53 bp):
TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:64549 original size:13 final size:13
Alignment explanation
Indices: 64531--64568 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
64521 CGTTTTTCTT
64531 TGTATCGATACAA
1 TGTATCGATACAA
*
64544 TGTATCGATACAC
1 TGTATCGATACAA
64557 TGTATCGATACA
1 TGTATCGATACA
64569 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:64732 original size:20 final size:20
Alignment explanation
Indices: 64689--64734 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
64679 AAATCTTTTG
64689 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
64710 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
64730 CAAAA
1 CAAAA
64735 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:66205 original size:23 final size:21
Alignment explanation
Indices: 66163--66205 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
66153 GTTTAATGTT
**
66163 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
66184 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
66206 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:67135 original size:13 final size:13
Alignment explanation
Indices: 67117--67142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67107 TACACAAAGT
67117 ATGTATCGATACA
1 ATGTATCGATACA
67130 ATGTATCGATACA
1 ATGTATCGATACA
67143 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:67140 original size:32 final size:33
Alignment explanation
Indices: 67099--67162 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
67089 TAGCCAAACT
**
67099 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
67131 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
67163 TGGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:69020 original size:13 final size:13
Alignment explanation
Indices: 69002--69038 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
68992 ACAATATTCC
69002 TTGTATCGATACA
1 TTGTATCGATACA
*
69015 TTGTATTGATACA
1 TTGTATCGATACA
69028 TTGTATCGATA
1 TTGTATCGATA
69039 TATTAGGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:70160 original size:19 final size:19
Alignment explanation
Indices: 70136--70191 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
70126 GTATCGATAC
* **
70136 ATTGTATCAATACATGTTA
1 ATTGTATCGATACATGACA
*
70155 ATTGTATCGATACCTGGACA
1 ATTGTATCGATACAT-GACA
70175 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
70192 GATTAGCAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGACA
Found at i:73518 original size:157 final size:157
Alignment explanation
Indices: 73222--73535 Score: 547
Period size: 157 Copynumber: 2.0 Consensus size: 157
73212 GATTTGTGTT
*
73222 TATTCTTTCACAAACATCAGCCTATTTAGAGGCAATTTTCGTTTGTACAAATTCCTTGAATTTTG
1 TATTCTTTCACAAACATCAACCTATTTAGAGGCAATTTTCGTTTGTACAAATTCCTTGAATTTTG
73287 TAAGGATATATTCAACCTTGGGTTACGATTTCTCAAGAATTTGGGGTATAATTCTTGAAGAGATT
66 TAAGGATATATTCAACCTTGGGTTACGATTTCTCAAGAATTTGGGGTATAATTCTTGAAGAGATT
* *
73352 GTGAGGTTTTTATCTTAACCTAGAAAA
131 GTGAAGTTTTTATCTTAACCCAGAAAA
* * * *
73379 TATTTTTTCACAAATATCAATCTATTTAGAGGCAATTTTCTTTTGTACAAATTCCTTGAATTTTG
1 TATTCTTTCACAAACATCAACCTATTTAGAGGCAATTTTCGTTTGTACAAATTCCTTGAATTTTG
* *
73444 TAAGGTTATATTCAACCTTGGGTTACGATTTCTCAAGAATTTGGGGTATAATTCTTGGAGAGATT
66 TAAGGATATATTCAACCTTGGGTTACGATTTCTCAAGAATTTGGGGTATAATTCTTGAAGAGATT
73509 GTGAAGTTTTTATCTTAACCCAGAAAA
131 GTGAAGTTTTTATCTTAACCCAGAAAA
73536 GATAAAGTGT
Statistics
Matches: 148, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 148 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (157 bp):
TATTCTTTCACAAACATCAACCTATTTAGAGGCAATTTTCGTTTGTACAAATTCCTTGAATTTTG
TAAGGATATATTCAACCTTGGGTTACGATTTCTCAAGAATTTGGGGTATAATTCTTGAAGAGATT
GTGAAGTTTTTATCTTAACCCAGAAAA
Found at i:75196 original size:13 final size:13
Alignment explanation
Indices: 75178--75203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75168 TACACAAAGT
75178 ATGTATCGATACA
1 ATGTATCGATACA
75191 ATGTATCGATACA
1 ATGTATCGATACA
75204 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:75201 original size:32 final size:33
Alignment explanation
Indices: 75160--75223 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
75150 TAGCCAAACT
**
75160 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
75192 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
75224 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:77435 original size:21 final size:21
Alignment explanation
Indices: 77402--77451 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
77392 TTGCAAGTTG
*
77402 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
77424 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
77445 AAATAAA
1 AAATAAA
77452 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:79268 original size:15 final size:15
Alignment explanation
Indices: 79248--79278 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79238 TAAAAATGTC
*
79248 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
79263 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
79278 C
1 C
79279 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:81564 original size:20 final size:20
Alignment explanation
Indices: 81521--81566 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
81511 AAATCTTTTG
81521 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
81542 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
81562 CAAAA
1 CAAAA
81567 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:83059 original size:23 final size:21
Alignment explanation
Indices: 83017--83059 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
83007 GTTTAATGTT
**
83017 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
83038 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
83060 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:83981 original size:32 final size:33
Alignment explanation
Indices: 83940--84001 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
83930 TAACCAAACT
**
83940 TGTATCGATACACAAAGTA-TGTATCGATATAA
1 TGTATCGATACACAAAAAATTGTATCGATATAA
83972 TGTATCGATACACAAAAAATTGTATCGATA
1 TGTATCGATACACAAAAAATTGTATCGATA
84002 CATTGGCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATATAA
Found at i:89138 original size:20 final size:20
Alignment explanation
Indices: 89115--89187 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
89105 ACAATTCAAA
89115 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
89135 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
89156 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
89176 GTATCGATACAT
1 GTATCGATACAT
89188 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:89158 original size:21 final size:21
Alignment explanation
Indices: 89132--89208 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
89122 TACATGTTGC
89132 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
89153 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
89173 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
89193 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
89209 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:89166 original size:41 final size:41
Alignment explanation
Indices: 89115--89208 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
89105 ACAATTCAAA
89115 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
89156 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
89197 GTATCGATACAT
1 GTATCGATACAT
89209 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:89265 original size:13 final size:13
Alignment explanation
Indices: 89247--89272 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89237 TACAGCAAGT
89247 ATGTATCGATACA
1 ATGTATCGATACA
89260 ATGTATCGATACA
1 ATGTATCGATACA
89273 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:93354 original size:15 final size:15
Alignment explanation
Indices: 93334--93364 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93324 TAAAAATGTC
*
93334 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
93349 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
93364 C
1 C
93365 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:95462 original size:13 final size:13
Alignment explanation
Indices: 95444--95481 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
95434 CATTTTTATT
95444 TGTATCGATACAA
1 TGTATCGATACAA
*
95457 TGTATCGATACAC
1 TGTATCGATACAA
95470 TGTATCGATACA
1 TGTATCGATACA
95482 GGGTGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:97377 original size:48 final size:48
Alignment explanation
Indices: 97323--97418 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
97313 GGGGAGATAA
97323 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
97371 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
97419 CGTAAAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (48 bp):
AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
Found at i:97995 original size:20 final size:20
Alignment explanation
Indices: 97972--98044 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
97962 ACAATTCAAA
97972 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
97992 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
98013 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
98033 GTATCGATACAT
1 GTATCGATACAT
98045 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:98015 original size:21 final size:21
Alignment explanation
Indices: 97989--98065 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
97979 TACATGTTGC
97989 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
98010 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
98030 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
98050 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
98066 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:98023 original size:41 final size:41
Alignment explanation
Indices: 97972--98065 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
97962 ACAATTCAAA
97972 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
98013 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
98054 GTATCGATACAT
1 GTATCGATACAT
98066 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:98122 original size:13 final size:13
Alignment explanation
Indices: 98104--98129 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98094 TACAGCAAGT
98104 ATGTATCGATACA
1 ATGTATCGATACA
98117 ATGTATCGATACA
1 ATGTATCGATACA
98130 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:99266 original size:13 final size:13
Alignment explanation
Indices: 99230--99267 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
99220 CAATGTTCTT
* *
99230 TGTATTGATACAA
1 TGTATCGATATAA
99243 TGTATCGATATAA
1 TGTATCGATATAA
99256 TGTATCGATATA
1 TGTATCGATATA
99268 TGGGTTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (13 bp):
TGTATCGATATAA
Found at i:102944 original size:92 final size:93
Alignment explanation
Indices: 102780--102962 Score: 250
Period size: 92 Copynumber: 2.0 Consensus size: 93
102770 GCTATAGTTG
* *
102780 GGATATCCTTGCCTTGGAGATCTTGGATTATATGATGCATCAATATCACTTAATGGTTGAGGACA
1 GGATATCCTTGCCTTGGAGATCTTAGATTATATGATGCATCAATATCACTTAATGGTTGAAGACA
102845 AAAGATATGATT-GGGAATATGTGGTTA
66 AAAGATATGATTGGGGAATATGTGGTTA
* *
102872 GGATTTCCTTGGCTTGGAGATCTTAGATTATATGATGCATCAATA-CTA-TCTAATGGTT-AAGA
1 GGATATCCTTGCCTTGGAGATCTTAGATTATATGATGCATCAATATC-ACT-TAATGGTTGAAGA
*
102934 -AAAAGGGATATGATTGGGGAATGTGTGGT
64 CAAAA--GATATGATTGGGGAATATGTGGT
102963 CGATGTGATT
Statistics
Matches: 81, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
90 4 0.05
91 5 0.06
92 60 0.74
93 12 0.15
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (93 bp):
GGATATCCTTGCCTTGGAGATCTTAGATTATATGATGCATCAATATCACTTAATGGTTGAAGACA
AAAGATATGATTGGGGAATATGTGGTTA
Found at i:109463 original size:17 final size:19
Alignment explanation
Indices: 109429--109469 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
109419 TGGTGGTTCT
109429 TTAGGTTTGTGTGTTGGTG
1 TTAGGTTTGTGTGTTGGTG
*
109448 TTAGGTTTG-G-GTTGGTT
1 TTAGGTTTGTGTGTTGGTG
109465 TTAGG
1 TTAGG
109470 AAGGTGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.52
18 1 0.05
19 9 0.43
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.51
Consensus pattern (19 bp):
TTAGGTTTGTGTGTTGGTG
Found at i:114010 original size:19 final size:18
Alignment explanation
Indices: 113986--114103 Score: 94
Period size: 19 Copynumber: 6.8 Consensus size: 18
113976 AGAGATACAT
113986 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
114005 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
114018 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
114037 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
114050 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
* *
114069 TGTATCGATACAGTTACTGTT
1 TGTATCGATACA--AACT-TA
114090 TGTATCGATACAAA
1 TGTATCGATACAAA
114104 TTGTTGAAAT
Statistics
Matches: 81, Mismatches: 3, Indels: 30
0.71 0.03 0.26
Matches are distributed among these distances:
13 22 0.27
14 2 0.02
16 4 0.05
18 2 0.02
19 35 0.43
20 3 0.04
21 13 0.16
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:114020 original size:32 final size:32
Alignment explanation
Indices: 113979--114080 Score: 195
Period size: 32 Copynumber: 3.2 Consensus size: 32
113969 GCTTCGTAGA
*
113979 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
114011 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
114043 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
114075 GATACA
1 GATACA
114081 GTTACTGTTT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGTATC
Found at i:114023 original size:13 final size:13
Alignment explanation
Indices: 114005--114061 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
113995 ACAAAACTTA
114005 TGTATCGATACAT
1 TGTATCGATACAT
114018 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
114036 ATGTATCGATACAT
1 -TGTATCGATACAT
114050 TGTATCGATACA
1 TGTATCGATACA
114062 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:114266 original size:10 final size:11
Alignment explanation
Indices: 114236--114270 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
114226 GACTAGGGAC
114236 GATGGGAAATG
1 GATGGGAAATG
114247 GATGGGAAATG
1 GATGGGAAATG
114258 GAT-GGAAATG
1 GATGGGAAATG
114268 GAT
1 GAT
114271 TCGTCCCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (11 bp):
GATGGGAAATG
Found at i:114938 original size:49 final size:49
Alignment explanation
Indices: 114713--116290 Score: 1241
Period size: 49 Copynumber: 33.0 Consensus size: 49
114703 AAGAGTGATA
* * * *
114713 AAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* ** * * ** * * *
114762 TAAAGAATGTTAATGTGCTGATTCACGGTTAGCGACATTAGTCTTGAAGATGA-G
1 --AAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GACG
* * * * * * **
114816 AAGAATGCCAATGTGCTAATTTAAGGCCAACGACATTGGGTTTTAAAGATGACG
1 AAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTT-AA-A-GACG
** *
114870 AAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* *
114919 AAGGTGCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AAA-GACG
* * *
114971 AAGGTGCCAATATGCCGATTCAAGGCCAGCAATATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * * * * *
115020 AAGGTGCCAATGTACT-AGTTCAAGACCAGTGACATTGGACATAGAGATGACG
1 AAGGTGCCAATATGCTGA-TTCAAGGCCAGCGATATTGGACTTA-A-A-GACG
** * *
115072 AAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGACATAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* *
115121 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GACG
* *
115173 AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* *
115222 AAGGTGCCAATGTGCTGATTC-AGGACCAGCGACATTGGACTTAAAGATGACG
1 AAGGTGCCAATATGCTGATTCAAGG-CCAGCGATATTGGACTT-AA-A-GACG
115274 AAGGTGCACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAG--G
1 AAGGTG--CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * * *
115322 -A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * *
115368 AAGGTGCCAATATGCTAATTCATGGCCAACGATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * * * *
115411 AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * * *
115460 AAGGTGCCAATGTGCTAATTCAAGGCCAGCGATATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
** *
115509 AAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * * *
115551 -A--TGCCAATGTGCTCATTCAAGGCCAGCGACATTGGACTTAAAGATGACC
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GACG
* * * *
115600 AAGGTGCCAATATGCTGATTCAAAGTCAACGATATTGCACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * * * *
115643 AAGGTGCCAATGTGCTGATTCGAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * *
115692 AAGGTACCAATATGCTGATTCAAGGCTAGTGATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * * * ** *
115735 AAGGTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTTTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
*
115784 AAGGTGCCAATATGCTGATT-AATGGCCAGTGATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAA-GGCCAGCGATATTGGACTTAAAGACG
* * * *
115827 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAC-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
*
115875 AAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * * *
115918 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGC-GATATTGGACTTAAAGACG
* * * *
115968 AAGCTGCCAATATGCTGATTCAAGGCTAGCAATATTGGGCTT-------
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * *
116010 -A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GACG
* *
116059 AAGGTGCTAATATGCTGATTCAAGGCTAGCGATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * * *
116102 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
*
116151 AAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * * * *
116194 AAGGTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
* * *
116243 AAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTGAAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGA
116291 AGATGCCACA
Statistics
Matches: 1233, Mismatches: 193, Indels: 203
0.76 0.12 0.12
Matches are distributed among these distances:
39 65 0.05
41 2 0.00
43 273 0.22
44 16 0.01
45 8 0.01
47 8 0.01
48 45 0.04
49 420 0.34
50 46 0.04
51 15 0.01
52 255 0.21
53 39 0.03
54 36 0.03
55 5 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACG
Found at i:115093 original size:202 final size:201
Alignment explanation
Indices: 114821--116272 Score: 1055
Period size: 184 Copynumber: 7.6 Consensus size: 201
114811 ATGAGAAGAA
* * * * **
114821 TGCCAATGTGCTAATTTAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCACCAATATGCT
1 TGCCAATGTGCTGATTCAAGACCAGCGACATT-GGACTT-AAGATGACGAAGGCACCAATATGCT
*
114886 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGTTGATTCAAGGCCAGCGA
64 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
*
114951 CATTGGACTTAAAAATGACGAAGGTGCCAATATGCCGATTCAAGGCCAGCAATATTGGACTTAAA
129 CATTGGACTTAAAAATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
115016 GATGAAGG
194 GATGAAGG
* * *
115024 TGCCAATGTACT-AGTTCAAGACCAGTGACATTGGACATAGAGATGACGAAGGCACCAATATGCT
1 TGCCAATGTGCTGA-TTCAAGACCAGCGACATTGGACTTA-AGATGACGAAGGCACCAATATGCT
* *
115088 GATTCAAGGCCAGCGATATTGGACATAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
64 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
*
115153 CATTGGACTTAAAGATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
129 CATTGGACTTAAAAATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
115218 GATGAAGG
194 GATGAAGG
*
115226 TGCCAATGTGCTGATTCAGGACCAGCGACATTGGACTTAAAGATGACGAAGGTGCACCAATATGC
1 TGCCAATGTGCTGATTCAAGACCAGCGACATTGGACTT-AAGATGACGAA-G-GCACCAATATGC
*
115291 TGATTCAAGGCCAGCGATATTGGACTT-AAG--G-A--TGCCAATGTGCTGATTCAAGGCCAGCG
63 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
* * * * * *
115350 ACATTGGTCTT--AAA-GACAAAGGTGCCAATATGCTAATTCATGGCCAACGATATTGGACTT--
128 ACATTGGACTTAAAAATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAA
115410 --A--AAGG
193 AGATGAAGG
* * * * ** * *
115415 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA-A-GACAAAGGTGCCAATGTGCTAA
1 TGCCAATGTGCTGATTCAAGACCAGCGACATTGGACTTAAGATGACGAAGGCACCAATATGCTGA
* ** ** *
115478 TTCAAGGCCAGCGATATTGGTCTTAAAGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATA
66 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACA
* * * * *
115543 TTGGGC-T-----T-----A--TGCCAATGTGCTCATTCAAGGCCAGCGACATTGGACTTAAAGA
131 TTGGACTTAAAAATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGA
115595 TGACCAAGG
196 TG---AAGG
* * * * * * *
115604 TGCCAATATGCTGATTCAA-AGTCAACGATATTGCACTTAA-A-G--G--TG--CCAATGTGCTG
1 TGCCAATGTGCTGATTCAAGA-CCAGCGACATTGGACTTAAGATGACGAAGGCACCAATATGCTG
* * * ** * * * *
115660 ATTCGAGGCCAGCGACATTGGTCTTAAAGACAAAGGTACCAATATGCTGATTCAAGGCTAGTGAT
65 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAC
* * * * * **
115725 ATTGGAC-T-----T-A--AAGGTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTTTTAAAG
130 ATTGGACTTAAAAATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
**
115781 ACAAAGG
195 ATGAAGG
* * * * * *
115788 TGCCAATATGCTGATT-AATGGCCAGTGATATTGGACTTAA-A-G--G--TG--CCAATGTGCTG
1 TGCCAATGTGCTGATTCAA-GACCAGCGACATTGGACTTAAGATGACGAAGGCACCAATATGCTG
* * * * * *
115844 ATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGTCAGCGAT
65 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAC
* * * *
115908 ATTGGAC-T-----T-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTGACATTGGTCTTAAA
130 ATTGGACTTAAAAATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGC-AATATTGGACTTAAA
** *
115964 GACAAAGC
194 GATGAAGG
* * * * * * *
115972 TGCCAATATGCTGATTCAAGGCTAGCAATATTGGGCTT---AT-------G--CCAATGTGCTGA
1 TGCCAATGTGCTGATTCAAGACCAGCGACATTGGACTTAAGATGACGAAGGCACCAATATGCTGA
* * *
116025 TTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCTAATATGCTGATTCAAGGCTAGCG
66 TTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCG
* * * * *
116090 ATATTGGAC-T-----T-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA
128 ACATTGGACTTAAAAATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAA
**
116146 AGACAAAGG
193 AGATGAAGG
* * * * * *
116155 TGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAA-A-G--G--TG--CCAATGTGCTGA
1 TGCCAATGTGCTGATTCAAGACCAGCGACATTGGACTTAAGATGACGAAGGCACCAATATGCTGA
* * * ** *
116212 TTTAAGGCCAGCGACATTGGTCTTAAAGACAAAGATGCCAATATGCTGATTCAAGGCCAGC
66 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
116273 AATATTGGGC
Statistics
Matches: 1101, Mismatches: 107, Indels: 101
0.84 0.08 0.08
Matches are distributed among these distances:
180 73 0.07
182 2 0.00
183 203 0.18
184 263 0.24
185 9 0.01
186 5 0.00
187 80 0.07
188 3 0.00
189 76 0.07
190 31 0.03
191 1 0.00
195 41 0.04
196 2 0.00
198 37 0.03
200 1 0.00
201 2 0.00
202 203 0.18
203 31 0.03
204 38 0.03
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (201 bp):
TGCCAATGTGCTGATTCAAGACCAGCGACATTGGACTTAAGATGACGAAGGCACCAATATGCTGA
TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACA
TTGGACTTAAAAATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGA
TGAAGG
Found at i:115569 original size:39 final size:39
Alignment explanation
Indices: 115515--115590 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
115505 GACAAAGGCA
* * *
115515 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATG
1 CCAATATGCTCATTCAAGGCCAGCGACATTGGACTTATG
*
115554 CCAATGTGCTCATTCAAGGCCAGCGACATTGGACTTA
1 CCAATATGCTCATTCAAGGCCAGCGACATTGGACTTA
115591 AAGATGACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (39 bp):
CCAATATGCTCATTCAAGGCCAGCGACATTGGACTTATG
Found at i:115736 original size:92 final size:92
Alignment explanation
Indices: 115459--116289 Score: 1182
Period size: 92 Copynumber: 9.0 Consensus size: 92
115449 TCTTAAAGAC
* * **
115459 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCGATATTGGTCTTAAAGACAAAGGCACCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
* *
115524 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCTAGCGATATTGGACTT
* * *
115551 --A--TGCCAATGTGCTCATTCAAGGCCAGCGACATTGGACTTAAAGATGACCAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAAGGTGCCAATA
* * *
115612 TGCTGATTCAAAG-TCAACGATATTGCACTT
63 TGCTGATTCAAGGCT-AGCGATATTGGACTT
* *
115642 AAAGGTGCCAATGTGCTGATTCGAGGCCAGCGACATTGGTCTTAAAGACAAAGGTACCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
*
115707 TGATTCAAGGCTAGTGATATTGGACTT
66 TGATTCAAGGCTAGCGATATTGGACTT
* * *
115734 AAAGGTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTTTTAAAGACAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
* *
115799 TGATT-AATGGCCAGTGATATTGGACTT
66 TGATTCAA-GGCTAGCGATATTGGACTT
*
115826 AAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAC-AAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
115890 TGATTCAAGG-TCAGCGATATTGGACTT
66 TGATTCAAGGCT-AGCGATATTGGACTT
*
115917 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTGACATTGGTCTTAAAGACAAAGCTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGC-GACATTGGTCTTAAAGACAAAGGTGCCAATATG
* *
115982 CTGATTCAAGGCTAGCAATATTGGGCTT
65 CTGATTCAAGGCTAGCGATATTGGACTT
* *
116010 --A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCTAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAAGGTGCCAATA
116071 TGCTGATTCAAGGCTAGCGATATTGGACTT
63 TGCTGATTCAAGGCTAGCGATATTGGACTT
116101 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
* *
116166 TGATTTAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCTAGCGATATTGGACTT
* *
116193 AAAGGTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGACAAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
* * *
116258 TGATTCAAGGCCAGCAATATTGGGCTT
66 TGATTCAAGGCTAGCGATATTGGACTT
116285 GAAAG
1 -AAAG
116290 AAGATGCCAC
Statistics
Matches: 668, Mismatches: 48, Indels: 45
0.88 0.06 0.06
Matches are distributed among these distances:
88 46 0.07
89 30 0.04
90 3 0.00
91 148 0.22
92 318 0.48
93 46 0.07
94 5 0.01
95 72 0.11
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
TGATTCAAGGCTAGCGATATTGGACTT
Found at i:115760 original size:275 final size:274
Alignment explanation
Indices: 115459--116289 Score: 1219
Period size: 275 Copynumber: 3.0 Consensus size: 274
115449 TCTTAAAGAC
* **
115459 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCGATATTGGTCTTAAAGACAAAGGCACCAATATGC
1 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
* * *
115524 TGATTCAAGGCCAGCGATATTGGGCTT-A-TGCCAATGTGCTCATTCAAGGCCAGCGACATTGGA
66 TGATTCAAGGCCAGCGATATTGGACTTAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
* * *
115587 CTTAAAGATGACCAAGGTGCCAATATGCTGATTCAAAGTCAACGATATTGCACTTAAAGGTGCCA
131 CTT-AA-A-GACCAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGGTGCCA
* * *
115652 ATGTGCTGATTCGAGGCCAGCGACATTGGTCTTAAAGACAAAGGTACCAATATGCTGATTCAAGG
193 ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGATGCCAATATGCTGATTCAAGG
**
115717 CTAGTGATATTGGACTT
258 CTAGCAATATTGGACTT
* *
115734 AAAGGTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTTTTAAAGACAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
* *
115799 TGATT-AATGGCCAGTGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATT
66 TGATTCAA-GGCCAGCGATATTGGACTT-AA-GTGCCAATGTGCTGATTCAAGGCCAGCGACATT
115863 GGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGGTGCCA
128 GGTCTTAAAGACCAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGGTGCCA
*
115927 ATGTGCTGATTCAAGGCCAGCTGACATTGGTCTTAAAGACAAAGCTGCCAATATGCTGATTCAAG
193 ATGTGCTGATTCAAGGCCAGC-GACATTGGTCTTAAAGACAAAGATGCCAATATGCTGATTCAAG
*
115992 GCTAGCAATATTGGGCTT
257 GCTAGCAATATTGGACTT
* * *
116010 --A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCTAATA
1 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAAGGTGCCAATA
*
116071 TGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA
63 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-GTGCCAATGTGCTGATTCAAGGCCAGCGACA
* * *
116136 TTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGC
126 TTGGTCTTAAAGACCAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGGTGC
*
116201 CAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTAAAGACAAAGATGCCAATATGCTGATTCAA
191 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGATGCCAATATGCTGATTCAA
* *
116266 GGCCAGCAATATTGGGCTT
256 GGCTAGCAATATTGGACTT
116285 GAAAG
1 -AAAG
116290 AAGATGCCAC
Statistics
Matches: 508, Mismatches: 33, Indels: 26
0.90 0.06 0.05
Matches are distributed among these distances:
272 34 0.07
273 2 0.00
274 4 0.01
275 298 0.59
276 130 0.26
277 2 0.00
278 3 0.01
279 35 0.07
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (274 bp):
AAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTTAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
CTTAAAGACCAAGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTTAAAGGTGCCAATG
TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGATGCCAATATGCTGATTCAAGGCTA
GCAATATTGGACTT
Found at i:115820 original size:324 final size:329
Alignment explanation
Indices: 115078--115829 Score: 1034
Period size: 324 Copynumber: 2.3 Consensus size: 329
115068 GACGAAGGCA
* * * * **
115078 CCAATATGCTGATTCAAGGCCAGCGATATTGGACATAAAGATGAAGGTGCCAATGTGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATGTGCTGATTCA
* * **
115143 AGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATAT
66 AGGCCAGCGATATTGGACTT-AA-A-GACAAAGGCACCAATATGCTGATTCAAGGCCAGCAATAT
*
115208 TGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAGGACCAGCGACATTGGACTTAAAGATGAC
128 TGGACTT----AT-AA-GTGCCAATGTGCTCATTCAGGACCAGCGACATTGGACTTAAAGATGAC
* * * *
115273 GAAGGTGCACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGGATGCCAATGTGCTGAT
187 CAAGGTG-ACCAATATGCTGATTCAAAGCCAACGATATTGCACTTAAGGATGCCAATGTGCTGAT
* *
115338 TCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTAATTCATGGCCAACGATAT
251 TCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTACCAATATGCTAATTCAAGGCCAACGATAT
115403 TGGACTTAAAGGTG
316 TGGACTTAAAGGTG
* *
115417 CTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATGTGCTAATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATGTGCTGATTCA
* *
115482 AGGCCAGCGATATTGGTCTTAAAGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGG
66 AGGCCAGCGATATTGGACTTAAAGACAAAGGCACCAATATGCTGATTCAAGGCCAGCAATATTGG
*
115547 GC-T-T-A-TGCCAATGTGCTCATTCAAGG-CCAGCGACATTGGACTTAAAGATGACCAAGGTG-
131 ACTTATAAGTGCCAATGTGCTCATTC-AGGACCAGCGACATTGGACTTAAAGATGACCAAGGTGA
* *
115606 CCAATATGCTGATTCAAAGTCAACGATATTGCACTTAAAGG-TGCCAATGTGCTGATTCGAGGCC
195 CCAATATGCTGATTCAAAGCCAACGATATTGCACTT-AAGGATGCCAATGTGCTGATTCAAGGCC
* * **
115670 AGCGACATTGGTCTTAAAGACAAAGGTACCAATATGCTGATTCAAGGCTAGTGATATTGGACTTA
259 AGCGACATTGGTCTTAAAGACAAAGGTACCAATATGCTAATTCAAGGCCAACGATATTGGACTTA
115735 AAGGTG
324 AAGGTG
* * * *
115741 CCAATGTGCTAATTCAAGGCCAACGACATTGGTTTTAAAGACAAAGGTGCCAATATGCTGATT-A
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATGTGCTGATTCA
*
115805 ATGGCCAGTGATATTGGACTTAAAG
66 A-GGCCAGCGATATTGGACTTAAAG
115830 GTGCCAATGT
Statistics
Matches: 374, Mismatches: 36, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
323 2 0.01
324 197 0.53
325 4 0.01
326 48 0.13
327 3 0.01
328 1 0.00
330 1 0.00
335 1 0.00
336 39 0.10
337 1 0.00
338 2 0.01
339 75 0.20
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (329 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATGTGCTGATTCA
AGGCCAGCGATATTGGACTTAAAGACAAAGGCACCAATATGCTGATTCAAGGCCAGCAATATTGG
ACTTATAAGTGCCAATGTGCTCATTCAGGACCAGCGACATTGGACTTAAAGATGACCAAGGTGAC
CAATATGCTGATTCAAAGCCAACGATATTGCACTTAAGGATGCCAATGTGCTGATTCAAGGCCAG
CGACATTGGTCTTAAAGACAAAGGTACCAATATGCTAATTCAAGGCCAACGATATTGGACTTAAA
GGTG
Found at i:115900 original size:21 final size:21
Alignment explanation
Indices: 115874--115942 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
115864 GTCTTAAAGA
115874 CAAGGTGCCAATATGCTGATT
1 CAAGGTGCCAATATGCTGATT
*
115895 CAAGGT-CAGCGATAT--TGGACTT
1 CAAGGTGC--CAATATGCT-GA-TT
* *
115917 AAAGGTGCCAATGTGCTGATT
1 CAAGGTGCCAATATGCTGATT
115938 CAAGG
1 CAAGG
115943 CCAGCTGACA
Statistics
Matches: 36, Mismatches: 5, Indels: 14
0.65 0.09 0.25
Matches are distributed among these distances:
20 2 0.06
21 18 0.50
22 14 0.39
23 2 0.06
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (21 bp):
CAAGGTGCCAATATGCTGATT
Found at i:116042 original size:459 final size:455
Alignment explanation
Indices: 115078--116289 Score: 1410
Period size: 459 Copynumber: 2.6 Consensus size: 455
115068 GACGAAGGCA
* * * * *
115078 CCAATATGCTGATTCAAGGCCAGCGATATTGGACATAAAGATG---AAGGTGCCAATGTGCTGAT
1 CCAATGTGCTCATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
* * * * * *
115140 TCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAA
66 TCAAGGCTAACGATATTGCAC-T-----T-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
* * ** * * *
115205 TATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTC-AGGACCAGCGACATTGGACTTAAAGA
122 CATTGGTCTTAAAGACAAAGGTACCAATATGCTGATTCAAGG-CCAGCGATATTGGAC-T-----
* * * * *
115269 TGACGAAGGTGCACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAG-----GATGCCA
180 T-A--AAGGTG--CCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGATGCCA
* * * * *
115328 ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTAATTCATGG
240 ATATGCTGATTCAAGGCCAGCAATATTGGACTT---G--AAAGGTGCCAATATGCTAATTCAAGG
* * * *
115393 CCAACGATATTGGACTTAAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
300 CCAACGACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT----A
*
115458 CAAAGGTGCCAATGTGCTAATTCAAGGCCAGCGATATTGGTCTTAAAGACAAAGGCACCAATATG
361 -AAAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGCACCAATATG
*
115523 CTGATTCAAGGCCAGCGATATTGGGCTTATG
425 CTGATTCAAGGCCAGCAATATTGGGCTTATG
*
115554 CCAATGTGCTCATTCAAGGCCAGCGACATTGGACTTAAAGATGACCAAGGTGCCAATATGCTGAT
1 CCAATGTGCTCATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
* *
115619 TCAAAG-TCAACGATATTGCACTTAAAGGTGCCAATGTGCTGATTCGAGGCCAGCGACATTGGTC
66 TCAAGGCT-AACGATATTGCACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTC
* *
115683 TTAAAGACAAAGGTACCAATATGCTGATTCAAGGCTAGTGATATTGGACTTAAAGGTGCCAATGT
130 TTAAAGACAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGT
* *
115748 GCTAATTCAAGGCCAACGACATTGGTTTTAAAGACAAAGGTGCCAATATGCTGATT-AATGGCCA
195 GCTAATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGATGCCAATATGCTGATTCAA-GGCCA
** * * *
115812 GTGATATTGGACTT-AAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACA
259 GCAATATTGGACTTGAAAGGTGCCAATATGCTAATTCAAGGCCAACGACATTGGACTT----A-A
* * *
115876 AGGTGCCAATATGCTGATTCAAGGTCAGCGATATTGGACTT-AAAGGTGCCAATGTGCTGATTCA
319 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGGTGCCAATGTGCTAATTCA
* *
115940 AGGCCAGCTGACATTGGTCTTAAAGACAAA-GCTGCCAATATGCTGATTCAAGGCTAGCAATATT
384 AGGCCAGC-GACATTGGTCTTAAAGACAAAGGC-ACCAATATGCTGATTCAAGGCCAGCAATATT
116004 GGGCTTATG
447 GGGCTTATG
* *
116013 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCTAATATGCTGAT
1 CCAATGTGCTCATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
* *
116078 TCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCT
66 TCAAGGCTAACGATATTGCACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCT
* *
116143 TAAAGACAAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTG
131 TAAAGACAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTG
* * *
116208 CTGATTTAAGGCCAGCGACATTGGTCTTAAAGACAAAGATGCCAATATGCTGATTCAAGGCCAGC
196 CTAATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGATGCCAATATGCTGATTCAAGGCCAGC
*
116273 AATATTGGGCTTGAAAG
261 AATATTGGACTTGAAAG
116290 AAGATGCCAC
Statistics
Matches: 647, Mismatches: 67, Indels: 60
0.84 0.09 0.08
Matches are distributed among these distances:
458 32 0.05
459 373 0.58
460 10 0.02
461 6 0.01
463 2 0.00
464 40 0.06
465 32 0.05
469 1 0.00
470 73 0.11
471 3 0.00
472 1 0.00
473 1 0.00
476 39 0.06
478 1 0.00
479 33 0.05
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (455 bp):
CCAATGTGCTCATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGAT
TCAAGGCTAACGATATTGCACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCT
TAAAGACAAAGGTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTG
CTAATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGATGCCAATATGCTGATTCAAGGCCAGC
AATATTGGACTTGAAAGGTGCCAATATGCTAATTCAAGGCCAACGACATTGGACTTAAAGGTGCC
AATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAGGTGCCAATGTGCTAATTCAAGGCCAG
CGACATTGGTCTTAAAGACAAAGGCACCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTATG
Found at i:116044 original size:39 final size:39
Alignment explanation
Indices: 115972--116049 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
115962 AAGACAAAGC
* * *
115972 TGCCAATATGCTGATTCAAGGCTAGCAATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTA
* *
116011 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
1 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTA
116050 AAGATGACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTTA
Found at i:116424 original size:34 final size:33
Alignment explanation
Indices: 116355--116769 Score: 274
Period size: 34 Copynumber: 12.8 Consensus size: 33
116345 TGAAAAGGGG
*
116355 AAAGA-TGCCACAGAGTTGTGGACTTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* *
116385 ---G-GTGCCACAGAGTTGTGGACTTAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAA-AGAA
* *
116415 AAAGAGTGCCACGGAGTTGCGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
*
116450 AAAG-GTGCCACGGAGTCGTGGACTT---AG-A
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* ** * *
116478 AAGGAGATGCCACTAAGTTGTGGACTTACAGGAA
1 AAAGAG-TGCCACGGAGTTGTGGACTTAAAAGAA
* ** * *** *
116512 AAAGGGATGCCACTAAGTTGTGGATTTTGTAG-G
1 AAAGAG-TGCCACGGAGTTGTGGACTTAAAAGAA
* *
116545 AAAGAGATGCAATGGAGTTGTGGACTTTAAAAAGAA
1 AAAGAG-TGCCACGGAGTTGTGGAC-TT-AAAAGAA
* * *
116581 AAAGAGTGCCACGAAGTTGTGGGCTTTAAA-AA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
116613 AAAG-GTGCCACGGAGTTGTGGACTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTT-AAAAGAA
* *
116646 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
*
116681 AAAG-GTGCCACGGAGTCGTGGACTT-AAA-AA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
** * *
116711 AAAGA-TGCCATTGAGTTGTGGACTTACAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* * * *
116743 AAAGGGATGCTACTGAGTCGTGGACTT
1 AAAGAG-TGCCACGGAGTTGTGGACTT
116770 GGAGAAGAGA
Statistics
Matches: 303, Mismatches: 54, Indels: 52
0.74 0.13 0.13
Matches are distributed among these distances:
27 24 0.08
28 5 0.02
29 3 0.01
30 40 0.13
31 23 0.08
32 15 0.05
33 34 0.11
34 112 0.37
35 38 0.13
36 9 0.03
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
Found at i:116531 original size:98 final size:95
Alignment explanation
Indices: 116355--116531 Score: 232
Period size: 98 Copynumber: 1.8 Consensus size: 95
116345 TGAAAAGGGG
*
116355 AAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAGGGAAAAAGA
1 AAAGATGCCACAGAGTCGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAGGGAAAAAGA
*
116420 GTGCCACGGAGTTGCGGGCTTTAAAAAGAA
66 GTGCCACGAAGTTGCGGGCTTTAAAAAGAA
* * *
116450 AAAGGTGCCACGGAGTCGTGGACTTAGAAAGGAGATGCCACTA-AGTTGTGGACTTACA-GGAAA
1 AAAGATGCCACAGAGTCGTGGACTTA-AAAGG-G-TGCCAC-AGAGTTGTGGACTTAAAGGGAAA
* *
116513 AAGGGATGCCACTAAGTTG
62 AAGAG-TGCCACGAAGTTG
116532 TGGATTTTGT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
95 23 0.33
96 5 0.07
97 10 0.14
98 31 0.44
99 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (95 bp):
AAAGATGCCACAGAGTCGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAGGGAAAAAGA
GTGCCACGAAGTTGCGGGCTTTAAAAAGAA
Found at i:116656 original size:133 final size:131
Alignment explanation
Indices: 116387--116667 Score: 307
Period size: 133 Copynumber: 2.1 Consensus size: 131
116377 CTTAAAAGGG
* ** * * * *
116387 TGCCACAGAGTTGTGGA-CTTAAAGGGAAAAAGAGTGCCACGGAGTTGCGGGCTTTAAAAAGAAA
1 TGCCACAGAGTTGTGGATTTTGTA-GGAAAGAGA-TGCAATGGAGTTGCGGACTTTAAAAAGAAA
* * ** * * *
116451 AAGGTGCCACGGAGTCGTGGACTTAGAAAGGAGATGCCACTAAGTTGTGGACTTACAGGAAAAAG
64 AAGGTGCCACGAAGTCGTGGACTTAAAAAAAAGATGCCACGAAGTTGTGGACTTAAAAGAAAAAG
*
116516 GGA
129 AGA
*
116519 TGCCACTA-AGTTGTGGATTTTGTAGGAAAGAGATGCAATGGAGTTGTGGACTTTAAAAAGAAAA
1 TGCCAC-AGAGTTGTGGATTTTGTAGGAAAGAGATGCAATGGAGTTGCGGACTTTAAAAAGAAAA
* * * *
116583 AGAGTGCCACGAAGTTGTGGGCTTTAAAAAAAAGGTGCCACGGAGTTGTGGACTTGAAAAGAAAA
65 AG-GTGCCACGAAGTCGTGGAC-TTAAAAAAAAGATGCCACGAAGTTGTGGACTT-AAAAGAAAA
116648 AGAG-
127 AGAGA
116652 TGCCACAGAGTTGTGG
1 TGCCACAGAGTTGTGG
116668 GCTTTAAAAA
Statistics
Matches: 123, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
131 29 0.24
132 40 0.33
133 44 0.36
134 10 0.08
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (131 bp):
TGCCACAGAGTTGTGGATTTTGTAGGAAAGAGATGCAATGGAGTTGCGGACTTTAAAAAGAAAAA
GGTGCCACGAAGTCGTGGACTTAAAAAAAAGATGCCACGAAGTTGTGGACTTAAAAGAAAAAGAG
A
Found at i:116712 original size:35 final size:34
Alignment explanation
Indices: 116380--116736 Score: 276
Period size: 34 Copynumber: 10.8 Consensus size: 34
116370 TTGTGGACTT
* * **
116380 AAAAGGGTGCCACAGAGTTGTGGACTTAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
* *
116414 AAAAGAGTGCCACGGAGTTGCGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGA
* *
116449 AAAAG-GTGCCACGGAGTCGTGGACTTAGAAAG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
* ** * *
116481 --GAGA-TGCCACTAAGTTGTGGACTT-ACAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
* ** * *** *
116511 AAAAGGGATGCCACTAAGTTGTGGATTTTGTAGGA
1 AAAAGAG-TGCCACGGAGTTGTGGACTTAAAAAGA
* * *
116546 AAGAGA-TGCAATGGAGTTGTGGACTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGA
* * *
116580 AAAAGAGTGCCACGAAGTTGTGGGCTT-TAAA-A
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
*
116612 AAAAG-GTGCCACGGAGTTGTGGACTTGAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
* *
116645 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGA
*
116680 AAAAG-GTGCCACGGAGTCGTGGACTT--AAA-A
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
**
116710 AAAAGA-TGCCATTGAGTTGTGGACTTA
1 AAAAGAGTGCCACGGAGTTGTGGACTTA
116737 CAGGAAAAAG
Statistics
Matches: 256, Mismatches: 51, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
29 2 0.01
30 42 0.16
31 22 0.09
32 11 0.04
33 31 0.12
34 101 0.39
35 47 0.18
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA
Found at i:125093 original size:33 final size:33
Alignment explanation
Indices: 125056--125119 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
125046 AAATTCCCAG
*
125056 ATGTATCTATACAAAGA-TCAATGTATCGATACA
1 ATGTATCAATACAAAGAGT-AATGTATCGATACA
**
125089 ATGTATCAATACATTGAGTAATGTATCGATA
1 ATGTATCAATACAAAGAGTAATGTATCGATA
125120 GATTTCCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (33 bp):
ATGTATCAATACAAAGAGTAATGTATCGATACA
Found at i:125180 original size:19 final size:19
Alignment explanation
Indices: 125152--125270 Score: 73
Period size: 19 Copynumber: 6.8 Consensus size: 19
125142 TAGCGATACA
*
125152 TTGTACCGATACAAAACTT
1 TTGTATCGATACAAAACTT
125171 TTGTATCGATAC---A---
1 TTGTATCGATACAAAACTT
125184 TTGTATCGATACAAAACTT
1 TTGTATCGATACAAAACTT
*
125203 ATGTATCGATAC---A---
1 TTGTATCGATACAAAACTT
* *
125216 TTGTATCGATACAACACGT
1 TTGTATCGATACAAAACTT
* **
125235 ATGTATCGATACAGTTACTGT
1 TTGTATCGATACA-AAACT-T
125256 TTGTATCGATACAAA
1 TTGTATCGATACAAA
125271 TTGTTGAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 27
0.67 0.09 0.24
Matches are distributed among these distances:
13 23 0.30
16 4 0.05
19 34 0.45
20 2 0.03
21 13 0.17
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACAAAACTT
Found at i:125181 original size:32 final size:32
Alignment explanation
Indices: 125145--125247 Score: 170
Period size: 32 Copynumber: 3.2 Consensus size: 32
125135 AACTTCGTAG
* *
125145 CGATACATTGTACCGATACAAAACTTTTGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
125177 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
125209 CGATACATTGTATCGATACAACACGTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
125241 CGATACA
1 CGATACA
125248 GTTACTGTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:125189 original size:13 final size:13
Alignment explanation
Indices: 125171--125228 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
125161 TACAAAACTT
125171 TTGTATCGATACA
1 TTGTATCGATACA
125184 TTGTATCGATACAAAA
1 TTGTATCGATAC---A
125200 CTTATGTATCGATACA
1 --T-TGTATCGATACA
125216 TTGTATCGATACA
1 TTGTATCGATACA
125229 ACACGTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.28
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:125419 original size:11 final size:11
Alignment explanation
Indices: 125403--125427 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
125393 GACTAGGGAC
125403 GATGGGAAATG
1 GATGGGAAATG
125414 GATGGGAAATG
1 GATGGGAAATG
125425 GAT
1 GAT
125428 TCGTCCCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (11 bp):
GATGGGAAATG
Found at i:125541 original size:25 final size:25
Alignment explanation
Indices: 125512--125559 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
125502 AGGTGCCTAC
125512 GACATGTATTTGAATAAAGGTGTGG
1 GACATGTATTTGAATAAAGGTGTGG
125537 GACATGTATTTGAATAAAGGTGT
1 GACATGTATTTGAATAAAGGTGT
125560 ATATGAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.33
Consensus pattern (25 bp):
GACATGTATTTGAATAAAGGTGTGG
Found at i:130445 original size:144 final size:141
Alignment explanation
Indices: 130106--130404 Score: 354
Period size: 142 Copynumber: 2.1 Consensus size: 141
130096 AAGGGATACG
* * * * * *
130106 AAAAG-TTTCAAAATTTTCTATAGCTCTATGAAAAACCAAAGGAATATTAAAAATCTTAAAAAAT
1 AAAAGTTTTGAAAA-TTTCTATACCCCTATGGAAAACCATAGGAATATTAGAAATCTTAAAAAAT
* * **
130170 TAAGATAATAATTTTTATTTAATTTTTTAAATTTTCAAAAAATCATTTCATACCTTAATGGAGGA
65 TAAGAAAATAATTTTTATTTAATTTTTTAAATTTTCAAAAAATCATTTCATA-CTTAAGGGAAAA
*
130235 CCGAAAAGATAGG
129 CCGAAAAGATAGA
*
130248 AAAAGTTTTGAAAATTTCTATACCCCTATGGAAAACCATAGGAATATTAGAAATCTTGAAAAATT
1 AAAAGTTTTGAAAATTTCTATACCCCTATGGAAAACCATAGGAATATTAGAAATCTTAAAAAATT
* * *
130313 AAGAAAATAATTTTTATTTAA-TTTTTAATTTTTTTAAGAAAATTCATTTTGCAT-TTTAAGGGA
66 AAGAAAATAATTTTTATTTAATTTTTTAA-ATTTTCAA-AAAA-TCA-TTT-CATACTTAAGGGA
* *
130376 AAACTGAAAAGATATA
126 AAACCGAAAAGATAGA
130392 AAAAGTTTT-AAAA
1 AAAAGTTTTGAAAA
130405 CTTTTCATAC
Statistics
Matches: 134, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
141 7 0.05
142 76 0.57
143 15 0.11
144 30 0.22
145 3 0.02
146 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.36
Consensus pattern (141 bp):
AAAAGTTTTGAAAATTTCTATACCCCTATGGAAAACCATAGGAATATTAGAAATCTTAAAAAATT
AAGAAAATAATTTTTATTTAATTTTTTAAATTTTCAAAAAATCATTTCATACTTAAGGGAAAACC
GAAAAGATAGA
Found at i:130454 original size:144 final size:139
Alignment explanation
Indices: 130163--130696 Score: 372
Period size: 147 Copynumber: 3.7 Consensus size: 139
130153 TAAAAATCTT
* *
130163 AAAAAATTAAGATAATAATTTTTATTTAATTTTTTAAATTTTCAAAAAA-TCA-TTT-CATACCT
1 AAAAAATTAAGATAATAATTTTTATTTAA-TTTTTAATTTTTTAAAAAATTCATTTTGCAT--CT
* ** * *
130225 TAATGGAGGACCGAAAAGATAGGAAAAGTTTTGAAAA-TTTCTATACCCCTATGGAAAACCATAG
63 TAATGGAGAACCGAAAAGATATAAAAAGTTTT-AAAATTTTC-ATACCTC-ATGG-ATACCAT-G
*
130289 G-AATATTAGAAATCT-T
123 GAAATATTAGAAAT-TAC
* * *
130305 GAAAAATTAAGAAAATAATTTTTATTTAATTTTTAATTTTTTTAAGAAAATTCATTTTGCATTTT
1 AAAAAATTAAGATAATAATTTTTATTTAATTTTTAA-TTTTTTAA-AAAATTCATTTTGCATCTT
* * *
130370 AAGGGAAAACTGAAAAGATATAAAAAGTTTTAAAACTTTTCATACGCTCATGGATACCTATGGAA
64 AATGGAGAACCGAAAAGATATAAAAAGTTTTAAAA-TTTTCATAC-CTCATGGATACC-ATGGAA
130435 ATATTAGAAATTAC
126 ATATTAGAAATTAC
* * * * *
130449 AAAAAATTGAAG-TGATAATTTTTATTGGATAAATTAATTTTATTTTTT-AAAAATTTATTTCGT
1 AAAAAATT-AAGATAATAATTTTTATT---T-AATT--TTTAATTTTTTAAAAAATTCATTTTGC
* * * * * * *
130512 ACCATAATGGAGACCCGAAAAGATATAAAAAATTTTAAAAATCTTCATGCCCTCATAGATACCCA
59 ATCTTAATGGAGAACCGAAAAGATATAAAAAGTTTT-AAAATTTTCAT-ACCTCATGGATA-CCA
130577 TGGAAATATTAGAAATTAC
121 TGGAAATATTAGAAATTAC
* * * * *
130596 GAAAAAAATGAAG-TGATCATTTTTATTGGATAAAGTAATTTT-ATTTTTCAAAAATTTCA-TTT
1 --AAAAAATTAAGATAATAATTTTTATT---T-AA-T--TTTTAATTTTTTAAAAAATTCATTTT
* *
130658 -CATACCTTAATGGAGATCCGAAAAGATACAAAAAGTTTT
57 GCAT--CTTAATGGAGAACCGAAAAGATATAAAAAGTTTT
130697 GAAGACTTTT
Statistics
Matches: 319, Mismatches: 44, Indels: 51
0.77 0.11 0.12
Matches are distributed among these distances:
141 7 0.02
142 33 0.10
143 15 0.05
144 71 0.22
145 12 0.04
146 3 0.01
147 76 0.24
148 43 0.13
149 54 0.17
150 4 0.01
151 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (139 bp):
AAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTTAAAAAATTCATTTTGCATCTTAA
TGGAGAACCGAAAAGATATAAAAAGTTTTAAAATTTTCATACCTCATGGATACCATGGAAATATT
AGAAATTAC
Found at i:130567 original size:147 final size:149
Alignment explanation
Indices: 130381--130696 Score: 483
Period size: 147 Copynumber: 2.1 Consensus size: 149
130371 AGGGAAAACT
* * * * *
130381 GAAAAGATATAAAAAGTTTTAAAACTTTTCATACGCTCATGGATACCTATGGAAATATTAGAAAT
1 GAAAAGATATAAAAAGTTTTAAAAATCTTCATACCCTCATAGATACCCATGGAAATATTAGAAAT
* * *
130446 TAC-AAAAAATTGAAGTGATAATTTTTATTGGATAAATTAATTTTATTTTTTAAAAATTT-ATTT
66 TACGAAAAAAATGAAGTGATAATTTTTATTGGATAAAGTAATTTTATTTTTCAAAAATTTCATTT
*
130509 CGTACCATAATGGAGACCC
131 CATACCATAATGGAGACCC
* *
130528 GAAAAGATATAAAAAATTTTAAAAATCTTCATGCCCTCATAGATACCCATGGAAATATTAGAAAT
1 GAAAAGATATAAAAAGTTTTAAAAATCTTCATACCCTCATAGATACCCATGGAAATATTAGAAAT
*
130593 TACGAAAAAAATGAAGTGATCATTTTTATTGGATAAAGTAATTTTATTTTTCAAAAATTTCATTT
66 TACGAAAAAAATGAAGTGATAATTTTTATTGGATAAAGTAATTTTATTTTTCAAAAATTTCATTT
* *
130658 CATACCTTAATGGAGATCC
131 CATACCATAATGGAGACCC
*
130677 GAAAAGATACAAAAAGTTTT
1 GAAAAGATATAAAAAGTTTT
130697 GAAGACTTTT
Statistics
Matches: 151, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
147 61 0.40
148 52 0.34
149 38 0.25
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (149 bp):
GAAAAGATATAAAAAGTTTTAAAAATCTTCATACCCTCATAGATACCCATGGAAATATTAGAAAT
TACGAAAAAAATGAAGTGATAATTTTTATTGGATAAAGTAATTTTATTTTTCAAAAATTTCATTT
CATACCATAATGGAGACCC
Found at i:130691 original size:148 final size:147
Alignment explanation
Indices: 130381--130696 Score: 463
Period size: 148 Copynumber: 2.1 Consensus size: 147
130371 AGGGAAAACT
* * * * * *
130381 GAAAAGATATAAAAAGTTTTAAAACTTTTCATACGCTCATGGATACCTATGGAAATATTAGAAAT
1 GAAAAGATAAAAAAAGTTTTAAAAATCTTCATACCCTCATAGATACCCATGGAAATATTAGAAAT
* * * *
130446 TACAAAAAATTGAAGTGATAATTTTTATTGGATAAATTAATTTTATTTTTTAAAAATTTATTTCG
66 TACAAAAAAATGAAGTGATAATTTTTATTGGATAAAGTAATTTTATTTTTCAAAAATTTATTTCA
130511 TACCATAATGGAGACCC
131 TACCATAATGGAGACCC
*
130528 GAAAAGATATAAAAAA-TTTTAAAAATCTTCATGCCCTCATAGATACCCATGGAAATATTAGAAA
1 GAAAAGATA-AAAAAAGTTTTAAAAATCTTCATACCCTCATAGATACCCATGGAAATATTAGAAA
*
130592 TTACGAAAAAAATGAAGTGATCATTTTTATTGGATAAAGTAATTTTATTTTTCAAAAATTTCATT
65 TTAC-AAAAAAATGAAGTGATAATTTTTATTGGATAAAGTAATTTTATTTTTCAAAAATTT-ATT
* *
130657 TCATACCTTAATGGAGATCC
128 TCATACCATAATGGAGACCC
*
130677 GAAAAGATACAAAAAGTTTT
1 GAAAAGATAAAAAAAGTTTT
130697 GAAGACTTTT
Statistics
Matches: 150, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
147 55 0.37
148 62 0.41
149 33 0.22
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (147 bp):
GAAAAGATAAAAAAAGTTTTAAAAATCTTCATACCCTCATAGATACCCATGGAAATATTAGAAAT
TACAAAAAAATGAAGTGATAATTTTTATTGGATAAAGTAATTTTATTTTTCAAAAATTTATTTCA
TACCATAATGGAGACCC
Found at i:131783 original size:19 final size:20
Alignment explanation
Indices: 131735--131790 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
131725 CTTCCAGTTT
* *
131735 CATGTATCGATACAATTATG
1 CATGTATCGATACAATGATA
*
131755 CATTTATCGATACAATGA-A
1 CATGTATCGATACAATGATA
*
131774 CATGTATCGATGCAATG
1 CATGTATCGATACAATG
131791 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:131793 original size:13 final size:13
Alignment explanation
Indices: 131775--131830 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
131765 TACAATGAAC
131775 ATGTATCGATGCA
1 ATGTATCGATGCA
*
131788 ATGTATCGATACA
1 ATGTATCGATGCA
*
131801 A---AGC-AT--A
1 ATGTATCGATGCA
131808 ATGTATCGATGCA
1 ATGTATCGATGCA
131821 ATGTATCGAT
1 ATGTATCGAT
131831 ACAAAGCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
7 2 0.06
9 2 0.06
10 4 0.12
11 2 0.06
13 24 0.71
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (13 bp):
ATGTATCGATGCA
Found at i:131812 original size:20 final size:20
Alignment explanation
Indices: 131787--131853 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
131777 GTATCGATGC
131787 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
131807 AATGTATCGAT-----GC--
1 AATGTATCGATACAAAGCAT
131820 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
131840 AATGTATCGATACA
1 AATGTATCGATACA
131854 TCTGGATGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
18 2 0.05
20 25 0.62
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGCAT
Done.