Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 421 of 444
Found at i:121912181 original size:41 final size:40
Alignment explanation
Indices: 121912045--121912181 Score: 118
Period size: 41 Copynumber: 3.3 Consensus size: 40
121912035 ATTCGCGGCT
*
121912045 TTTATGGACAAAATGCCGCTATTGCTTTACC-TTTAGTGACA
1 TTTATGGA-AAAATGCCGCTATTGCTTTACCTTTTA-TGGCA
* * *
121912086 TTTATGAGAAAAACGCCGCTATAAT-TTTTAACTTTT-TGCGGCA
1 TTTATG-GAAAAATGCCGCTAT--TGCTTTACCTTTTAT--GGCA
* * *
121912129 TTTATGCAAAAATGTCGCTATTGCTTTACCTTTTATGGCG
1 TTTATGGAAAAATGCCGCTATTGCTTTACCTTTTATGGCA
121912169 TTTATGGGAAAAA
1 TTTAT-GGAAAAA
121912182 CGCACTAACG
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
40 9 0.12
41 34 0.45
42 20 0.26
43 13 0.17
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (40 bp):
TTTATGGAAAAATGCCGCTATTGCTTTACCTTTTATGGCA
Found at i:121914689 original size:22 final size:22
Alignment explanation
Indices: 121914664--121914706 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
121914654 TATCCAAACA
121914664 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
121914686 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
121914707 AATAGGAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:121914710 original size:11 final size:11
Alignment explanation
Indices: 121914671--121914711 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
121914661 ACAATAACAA
121914671 CAAAATAGTAG
1 CAAAATAGTAG
* *
121914682 CAACATAATAG
1 CAAAATAGTAG
*
121914693 TAAAATAGTAG
1 CAAAATAGTAG
121914704 CAAAATAG
1 CAAAATAG
121914712 GAAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:121916048 original size:19 final size:18
Alignment explanation
Indices: 121916019--121916058 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
121916009 GTAAATGGGG
121916019 CTTTTTTTTTTCTC-CTTT
1 CTTTTTTTTTT-TCGCTTT
121916037 CTTTTTTCTTTTTCGCTTT
1 CTTTTTT-TTTTTCGCTTT
121916056 CTT
1 CTT
121916059 AACAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.75
Consensus pattern (18 bp):
CTTTTTTTTTTTCGCTTT
Found at i:121916413 original size:22 final size:23
Alignment explanation
Indices: 121916388--121916430 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
121916378 CCGGAGCTCC
121916388 CTCCCTCTC-CCCTTTCTTTTCT
1 CTCCCTCTCTCCCTTTCTTTTCT
* *
121916410 CTCCCTTTCTCTCTTTCTTTT
1 CTCCCTCTCTCCCTTTCTTTT
121916431 TTTTTCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (23 bp):
CTCCCTCTCTCCCTTTCTTTTCT
Found at i:121916868 original size:3 final size:3
Alignment explanation
Indices: 121916860--121916920 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
121916850 TTTTTCTTAT
* *
121916860 TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
121916908 TTA CTA TATA TTA
1 TTA TTA T-TA TTA
121916921 GTATACGTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:121916981 original size:26 final size:27
Alignment explanation
Indices: 121916948--121917063 Score: 64
Period size: 26 Copynumber: 4.3 Consensus size: 27
121916938 GTGAATATTG
*
121916948 TATA-TATTCATA-TATAATATTATTTT
1 TATATTATT-ATATTATAATATTATTAT
* *
121916974 TA-ATTATTGTATTTTAATATTATTAT
1 TATATTATTATATTATAATATTATTAT
* **
121917000 TATATTATATATACTTCTTCGTATT-TTAT
1 TATATTAT-TATA-TT-ATAATATTATTAT
*
121917029 TATTATTATTAGTATTAT--TATCATTAT
1 TA-TATTATTA-TATTATAATATTATTAT
121917056 TCATATTA
1 T-ATATTA
121917064 GCATATGTGT
Statistics
Matches: 72, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
25 3 0.04
26 23 0.32
27 15 0.21
28 5 0.07
29 12 0.17
30 14 0.19
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.59
Consensus pattern (27 bp):
TATATTATTATATTATAATATTATTAT
Found at i:121916999 original size:3 final size:3
Alignment explanation
Indices: 121916965--121917056 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
121916955 TCATATATAA
* * *
121916965 TAT TAT TTT TAAT TAT T-G TAT T-T TAA TAT TAT TAT TA- TAT TA-
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
121917007 TAT ATACT TCT TCG TAT T-T TAT TAT TAT TAT TAG TAT TAT TAT CAT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
121917053 TAT T
1 TAT T
121917057 CATATTAGCA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 9 0.13
3 52 0.78
4 5 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:121917155 original size:24 final size:23
Alignment explanation
Indices: 121917127--121917184 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 23
121917117 ACTATTATAT
121917127 TTATTATTATCCTATTTATTTTCACTA
1 TTATTATTAT--TA-TTATTTTCA-TA
121917154 TTATTATTATTATTATTTTCATCA
1 TTATTATTATTATTATTTTCAT-A
121917178 TTATTAT
1 TTATTAT
121917185 ACATATATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 1 0.03
24 17 0.57
25 2 0.07
27 10 0.33
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATTATTATTTTCATA
Found at i:121932785 original size:73 final size:73
Alignment explanation
Indices: 121932687--121932939 Score: 361
Period size: 73 Copynumber: 3.5 Consensus size: 73
121932677 AACTCATGCT
* *
121932687 TTTCAAAAATCAATTCATACTGCGAGAAGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTT
121932752 AATGTATG
66 AATGTATG
**
121932760 TTTCAAAAATTGACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTT
*
121932825 AATTTATG
66 AATGTATG
* * *
121932833 TTTCAAAATTTAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGT--CACGCTGAGGTA-TTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTT
121932895 AATTCCTGT-TG
66 AA----TGTATG
*
121932906 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGT
121932940 TGAGCCTCGA
Statistics
Matches: 165, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
70 6 0.04
71 12 0.07
73 145 0.88
74 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (73 bp):
TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTCAAGCCTCAGGTCACACGCTGAGGTATTTTT
AATGTATG
Found at i:121933043 original size:88 final size:88
Alignment explanation
Indices: 121932894--121933121 Score: 422
Period size: 88 Copynumber: 2.6 Consensus size: 88
121932884 TGAGGTATTT
121932894 TAATTCCTGTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCATGCTG
1 TAATTCCTGTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCATGCTG
*
121932959 AGGTATTTTCAGTTTTTACTTTC
66 AGGTATTTTCAGTTTCTACTTTC
*
121932982 TAATTCCTGTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCTG
1 TAATTCCTGTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCATGCTG
121933047 AGGTATTTTCAGTTTCTACTTTC
66 AGGTATTTTCAGTTTCTACTTTC
*
121933070 CAATTCCTGTT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TAATTCCTGTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
121933122 GTTAATTTCT
Statistics
Matches: 137, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 41 0.30
88 96 0.70
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (88 bp):
TAATTCCTGTTGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCATGCTG
AGGTATTTTCAGTTTCTACTTTC
Found at i:121933211 original size:50 final size:51
Alignment explanation
Indices: 121933076--121933225 Score: 182
Period size: 54 Copynumber: 2.9 Consensus size: 51
121933066 TTTCCAATTC
121933076 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGTTAATTT
1 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT-ATTT
* *
121933130 CTGTTTTTCAAAAAGCAACTCATATTACGAGAGGTGAGTTGTA-CC-T-TTT
1 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTATTT
* *
121933179 -TGTTTTTCAAAAAAATCAACCCATATTGCGAGAAGTGAGTTGAGCCT
1 CTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
121933226 CGGGTCACAT
Statistics
Matches: 85, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
48 8 0.09
49 4 0.05
50 30 0.35
51 1 0.01
54 41 0.48
55 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (51 bp):
CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTATTT
Found at i:121933461 original size:70 final size:73
Alignment explanation
Indices: 121933279--121933465 Score: 227
Period size: 74 Copynumber: 2.6 Consensus size: 73
121933269 AAATTTTTAC
* ** * * * *
121933279 TTTCCTAAAACCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTTA
1 TTTCC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
*
121933344 ATTCCTGTTG
65 ATT-CTGATG
* * * *
121933354 TTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAG
1 TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
121933419 TT-T-ATG
66 TTCTGATG
121933425 -TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
121933466 GGGCCACATG
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
70 39 0.40
71 2 0.02
72 1 0.01
74 52 0.53
75 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (73 bp):
TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
TTCTGATG
Found at i:121933648 original size:13 final size:13
Alignment explanation
Indices: 121933630--121933663 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
121933620 CGCTGAGGTA
*
121933630 TTTTCAATTTCTG
1 TTTTCAATTTATG
121933643 TTTTCAATTTATG
1 TTTTCAATTTATG
121933656 TTGTTCAA
1 TT-TTCAA
121933664 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:121933779 original size:142 final size:142
Alignment explanation
Indices: 121933429--121933935 Score: 752
Period size: 142 Copynumber: 3.5 Consensus size: 142
121933419 TTTATGTTCC
* * * **
121933429 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACATGCCGAGGTATTTTCAAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC--GCTGAGGTATTTTCAATTT
* ****
121933494 CTGTTTTGAAAAATTCTAT-TTCCGAAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTT
64 CTGTTTT---CAATT-TATGTTGTTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTT
121933558 TAATTTCTACTCTTTCAAA
125 TAATTTCTACTCTTTC-AA
*
121933577 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
*
121933642 GTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTACGAGAGATGGGTTGAACCTTTTAATTT
66 GTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTTTAATTT
121933707 CTACTCTTTCAA
131 CTACTCTTTCAA
*
121933719 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTGTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
121933784 GTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTTTAATTT
66 GTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTTTAATTT
121933849 CTACTCTTTC--
131 CTACTCTTTCAA
* * *
121933859 AAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCGAGG-CACGCTGAGGTATTTTCAATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGTCACGCTGAGGTATTTTCAATTTC
*
121933923 TGTGTTTTAATTT
65 TGT-TTTCAATTT
121933936 CAACTCATAT
Statistics
Matches: 336, Mismatches: 20, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
140 59 0.18
141 11 0.03
142 142 0.42
143 60 0.18
146 23 0.07
148 41 0.12
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (142 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
GTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTTTAATTT
CTACTCTTTCAA
Found at i:121935316 original size:22 final size:23
Alignment explanation
Indices: 121935291--121935333 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
121935281 CCGGAGCTCC
121935291 CTCCCTCTC-CCCTTTCTTTTCT
1 CTCCCTCTCTCCCTTTCTTTTCT
* *
121935313 CTCCCTTTCTCTCTTTCTTTT
1 CTCCCTCTCTCCCTTTCTTTT
121935334 TTTTCTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (23 bp):
CTCCCTCTCTCCCTTTCTTTTCT
Found at i:121935771 original size:3 final size:3
Alignment explanation
Indices: 121935763--121935823 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
121935753 TTTTTCTTAT
* * * *
121935763 TTA TTA TTA TTA TTA TCA TTA GTA TTA TTA TTA TTA TTG TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
121935811 TTA CTA TATA TTA
1 TTA TTA T-TA TTA
121935824 GTATACGTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:121935902 original size:3 final size:3
Alignment explanation
Indices: 121935868--121935959 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
121935858 TCATATATAA
* * *
121935868 TAT TAT TTT TAGT TAT T-G TAT T-T TAA TAT TAT TAT TA- TAT TA-
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
121935910 TAT ATACT TCT TCG TAT T-T TAT TAT TAT TAT TAG TAT TAT TAT CAT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
121935956 TAT T
1 TAT T
121935960 CATATTAGCA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 9 0.13
3 51 0.76
4 6 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:121936069 original size:21 final size:22
Alignment explanation
Indices: 121936031--121936084 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 22
121936021 CTATTATATT
121936031 TATTATTATCCTATTTATTTTCA
1 TATTATTAT-CTATTTATTTTCA
121936054 CTATTATTAT-TA-TTATTTTCA
1 -TATTATTATCTATTTATTTTCA
121936075 TCATTATTAT
1 T-ATTATTAT
121936085 ACATATATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.03
21 17 0.59
22 2 0.07
24 9 0.31
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTATTATCTATTTATTTTCA
Found at i:121939598 original size:31 final size:32
Alignment explanation
Indices: 121939563--121939629 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
121939553 TTTTTGACTA
*
121939563 AAAAGTGTTTT-TACAA-AATATTTTTTATCTC
1 AAAAGTATTTTATACAATAATA-TTTTTATCTC
**
121939594 AAAAGTATTTTATTTAATAATATTTTTATCTC
1 AAAAGTATTTTATACAATAATATTTTTATCTC
121939626 AAAA
1 AAAA
121939630 ATACTTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 10 0.32
32 17 0.55
33 4 0.13
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.48
Consensus pattern (32 bp):
AAAAGTATTTTATACAATAATATTTTTATCTC
Found at i:121939606 original size:16 final size:16
Alignment explanation
Indices: 121939576--121939629 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
121939566 AGTGTTTTTA
121939576 CAAAATATTTTTTATCT
1 CAAAATA-TTTTTATCT
121939593 CAAAAGTA-TTTTAT-T
1 CAAAA-TATTTTTATCT
*
121939608 TAATAATATTTTTATCT
1 CAA-AATATTTTTATCT
121939625 CAAAA
1 CAAAA
121939630 ATACTTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 5 0.16
16 16 0.52
17 8 0.26
18 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (16 bp):
CAAAATATTTTTATCT
Found at i:121943139 original size:25 final size:24
Alignment explanation
Indices: 121943111--121943174 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
121943101 TTCTCAATAC
* *
121943111 TCAGCTCGTATGAGCTTTCCGTTAT
1 TCAGCTTGTATGAGCTTCCCGTT-T
*
121943136 TCAGCTTGCATGAGCTTCCCGTTT
1 TCAGCTTGTATGAGCTTCCCGTTT
*
121943160 ACAGCTTGTATGAGC
1 TCAGCTTGTATGAGC
121943175 ATATATGAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 14 0.41
25 20 0.59
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (24 bp):
TCAGCTTGTATGAGCTTCCCGTTT
Found at i:121943164 original size:24 final size:25
Alignment explanation
Indices: 121943120--121943174 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
121943110 CTCAGCTCGT
* *
121943120 ATGAGCTTTCCGTTATTCAGCTTGC
1 ATGAGCTTCCCGTTATACAGCTTGC
*
121943145 ATGAGCTTCCCGTT-TACAGCTTGT
1 ATGAGCTTCCCGTTATACAGCTTGC
121943169 ATGAGC
1 ATGAGC
121943175 ATATATGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAGCTTGC
Found at i:121943748 original size:2 final size:2
Alignment explanation
Indices: 121943741--121943767 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
121943731 TATTTTGATG
121943741 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
121943768 GTGGCCTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:121961360 original size:78 final size:79
Alignment explanation
Indices: 121961211--121961360 Score: 194
Period size: 78 Copynumber: 1.9 Consensus size: 79
121961201 GGGAAAATAT
* * * * *
121961211 TAACCTATCACAACTTTTGTTTTTCGTTGGCAAATATTTTATCTAACCCAACCTTTTTTTGTGTT
1 TAACCTATCACAACCTTTGTTTTTCATTGGCAAATATTTGACCTAACCCAACCTTTTTTTATGTT
*
121961276 GCCTTTGTTGCTCA
66 ACCTTTGTTGCTCA
* * * *
121961290 TAACTTATCTCAACCTTT-TTTTTCATTGGCAAATGTTTGACCTAACTCAACCTTTTTTTATGTT
1 TAACCTATCACAACCTTTGTTTTTCATTGGCAAATATTTGACCTAACCCAACCTTTTTTTATGTT
*
121961354 ATCTTTG
66 ACCTTTG
121961361 GACTAACCCA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
78 45 0.75
79 15 0.25
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (79 bp):
TAACCTATCACAACCTTTGTTTTTCATTGGCAAATATTTGACCTAACCCAACCTTTTTTTATGTT
ACCTTTGTTGCTCA
Found at i:121961980 original size:2 final size:2
Alignment explanation
Indices: 121961973--121962001 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
121961963 TTTATACCAA
121961973 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
121962002 ATAAACACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121966087 original size:29 final size:28
Alignment explanation
Indices: 121966055--121966136 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
121966045 AAATAAAAAA
*
121966055 TTCATTTTGACCCTTAAACTTTCTTTAAT
1 TTCATTTTGACCC-TAAACTTTCTTAAAT
* *
121966084 TTCACTTAGACCCCTAAACTTTTCTTAAAT
1 TTCATTTTGA-CCCTAAAC-TTTCTTAAAT
* * *
121966114 TACATTTTAACCCTAAATTTTCT
1 TTCATTTTGACCCTAAACTTTCT
121966137 AAAAATTACA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
28 5 0.12
29 20 0.47
30 18 0.42
ACGTcount: A:0.28, C:0.23, G:0.02, T:0.46
Consensus pattern (28 bp):
TTCATTTTGACCCTAAACTTTCTTAAAT
Found at i:121971570 original size:18 final size:18
Alignment explanation
Indices: 121971501--121971593 Score: 77
Period size: 17 Copynumber: 5.1 Consensus size: 18
121971491 CGTTGTAAAC
* *
121971501 TTTTCGTGTTTCCAAAAT
1 TTTTCGTGTTTTCAAAAA
121971519 TTTTCGTGTTTTTCTAAAAAAA
1 TTTTCGTG-TTTTC---AAAAA
**
121971541 AATTCAG-G-TTTCAAAAA
1 TTTTC-GTGTTTTCAAAAA
121971558 TTTTCGTGTTTTC-AAAA
1 TTTTCGTGTTTTCAAAAA
121971575 TTTTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
121971592 TT
1 TT
121971594 CTCATTTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
16 1 0.02
17 31 0.51
18 12 0.20
19 4 0.07
20 4 0.07
22 8 0.13
23 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:121974759 original size:11 final size:11
Alignment explanation
Indices: 121974732--121974769 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
121974722 GACAGTCATG
121974732 AAAAGAAAAAA-
1 AAAA-AAAAAAC
*
121974743 ATAAAAAAAAC
1 AAAAAAAAAAC
121974754 AAAAAAAAAAC
1 AAAAAAAAAAC
121974765 AAAAA
1 AAAAA
121974770 GAGAGATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.89, C:0.05, G:0.03, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:121975370 original size:15 final size:16
Alignment explanation
Indices: 121975349--121975387 Score: 64
Period size: 14 Copynumber: 2.6 Consensus size: 16
121975339 TCATTCATTC
121975349 AAAAGAAAAAAGAAAG
1 AAAAGAAAAAAGAAAG
121975365 -AAAG-AAAAAGAAAG
1 AAAAGAAAAAAGAAAG
121975379 AAAAGAAAA
1 AAAAGAAAA
121975388 TGGAGAGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.48
15 8 0.38
16 3 0.14
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAG
Found at i:121975374 original size:14 final size:15
Alignment explanation
Indices: 121975349--121975387 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
121975339 TCATTCATTC
121975349 AAAAGAAAAAAGAAAG
1 AAAAG-AAAAAGAAAG
121975365 -AAAGAAAAAGAAAG
1 AAAAGAAAAAGAAAG
121975379 AAAAGAAAA
1 AAAAGAAAA
121975388 TGGAGAGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:121977053 original size:71 final size:72
Alignment explanation
Indices: 121976935--121977176 Score: 265
Period size: 71 Copynumber: 3.2 Consensus size: 72
121976925 TATTTTGATG
* * *
121976935 TTTCAATTTCTGTTTGTCAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTCAATTTCTGTTT-TCAAAAATAAACCCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
*
121977000 TGAGGTAT
65 TAAGGTAT
* * *
121977008 TTTCAATTTAT-TTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAAATAAACCCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCT
121977072 AAGGTAT
66 AAGGTAT
121977079 TTTCAATTTCTGTCTTTCAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTCAATTTCTGT-TTTC---AAAAAT-----AAA-C--C-CATATTGCGAGAGGTGAGTTGAGC
121977144 CTCAAG--ACGCTAAGGTAT
53 CTCAAGACACGCTAAGGTAT
*
121977162 TTTCAATTTCCGTTT
1 TTTCAATTTCTGTTT
121977177 GTTAATTTAT
Statistics
Matches: 144, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
71 61 0.42
72 4 0.03
73 14 0.10
76 6 0.04
81 3 0.02
82 3 0.02
83 23 0.16
85 30 0.21
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (72 bp):
TTTCAATTTCTGTTTTCAAAAATAAACCCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCT
AAGGTAT
Found at i:121977210 original size:83 final size:83
Alignment explanation
Indices: 121977008--121977256 Score: 329
Period size: 83 Copynumber: 3.0 Consensus size: 83
121976998 GCTGAGGTAT
*
121977008 TTTCAATTTATTTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTA
1 TTTCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGTTA
*
121977073 AGGTATTTTCAATTTCTGTC
64 AGGTATTTTCAATTTCCGTC
*** ** *** *
121977093 TTTCAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTAAG
1 TTTCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGTTAAG
121977158 GTATTTTCAATTTCCGT-
66 GTATTTTCAATTTCCGTC
*
121977175 TTGTTAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTT
1 TT-TCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC--GTT
*
121977240 GAGGTATTTTCAATTTC
63 AAGGTATTTTCAATTTC
121977257 TGCTCACATT
Statistics
Matches: 139, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
82 2 0.01
83 71 0.51
85 66 0.47
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (83 bp):
TTTCAATTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGTTAAG
GTATTTTCAATTTCCGTC
Found at i:121977276 original size:58 final size:58
Alignment explanation
Indices: 121977201--121977316 Score: 180
Period size: 58 Copynumber: 2.0 Consensus size: 58
121977191 CAAAAATCAA
* * *
121977201 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGT-ATTTTCAATTTCTG
1 CTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT-AATTTCTG
*
121977259 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCTG
1 CTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTCTG
121977317 TTTTTCAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 48 0.91
59 5 0.09
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (58 bp):
CTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTCTG
Found at i:121977393 original size:78 final size:76
Alignment explanation
Indices: 121977259--121978841 Score: 946
Period size: 78 Copynumber: 19.9 Consensus size: 76
121977249 TCAATTTCTG
*
121977259 CTCACATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTCTGTTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTCTGTTTTTC
121977323 AAAAAACAAATCAA
65 -AAAAA-AAATCAA
* * * *
121977337 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTATCTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTC-
121977402 AAAAAAAAATCAA
65 -AAAAAAAATCAA
* * *
121977415 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGTTTGTC-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCA
121977479 --AAAAATCAA
66 AAAAAAATCAA
* * *
121977488 CTCATATTGCGGGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT-TTCTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTT-TTTC
121977552 AAAAAAAATCAA
65 AAAAAAAATCAA
* * * * * *
121977564 CTCATATTGCGAGAGGTGAGTTGAACCTCA--AGATGCTGAGGTGTTTTCCATTTCTGTTCTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCA
*
121977627 ATTTCTGTTTTTCAAAAA--AA
66 A-----------AAAAAATCAA
* * * * * * * * * ** *
121977647 -TCA-ATT-C-ATATTGCGAGAGGTGAG-TTGA-GCCTCAG-GGCACGCTGAGGTATTTTCAATT
1 CTCATATTGCGAGA--G-GTGAGTTGAGCCTCAGGACAC-GCTG-A-GGT-A--T-TTTCAATTT
*
121977705 -TATTTTTC---AAAAATCAA
56 CTGTTTTTCAAAAAAAATCAA
* * * *
121977722 CTCATATTGCGAGAGATGAGTTGAGCCTTAGGGCACGCTGAGGTATTTTCAA-TT-TATTTTTC-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCA
121977784 --AAAAATCAA
66 AAAAAAATCAA
* * * *
121977793 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTATTTTCAATTTCTGTCTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTC-
121977858 AAAAAAAATCAAAAAGATCAA
65 ------AA--AAAAA-ATCAA
* * *
121977879 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTAATTTCAATTTCTGTTTGT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTTCTGTTTTT
121977944 C---AAAAATCAA
64 CAAAAAAAATCAA
* * * * * * * * *
121977954 CTCGTTTTGTGAGAGATGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA--TTTTCAATTTCTGTTT
121978019 TTC-AAAAAAATCAA
62 TTCAAAAAAAATCAA
* * * *
121978033 CTCATACTGCGAGAGGTGAGTTGAGCCTTAGGACATGTTGAGGTATTTTCAATTTCTGTTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCA
121978098 ATTTATGTTTTTCAAAAATCAA
66 A---A--------AAAAATCAA
* *
121978120 CTCATATTGCGAGATGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT-TCTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGT-TTTTC
121978184 AAAAAAAATCAA
65 AAAAAAAATCAA
* *
121978196 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTTCAATTTCTAACTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATTTCT--GTT
****
121978260 CAATTTCTGTTTCCAAAATCAA
61 ---TTTC---AAAAAAAATCAA
* * *
121978282 CTCATATTGTGAGAGGTGAGTTGAGCATC-GGCTCACATGCTGAGGTATTTTCAATTTCTGTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATTTCTGTTTT
*
121978346 TCAATTTCTGTCTTTCAAAAAA-AAA
63 TCAA------------AAAAAATCAA
* * * * * **
121978371 TTCA-ACT-C-ATATTGTGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAACTTCAATTTCT
1 CTCATATTGCGAGA--G-G-T----GAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
121978433 GTTTTTC---AAAAATCAA
58 GTTTTTCAAAAAAAATCAA
* * *
121978449 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACTCTGAGGTATTTTCAATTTCCGTTTATGC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTT-T--
****
121978514 TTTTCAAAAATCAA
63 TCAAAAAAAATCAA
* * *
121978528 CTCATATTGCGAGAGGTGAGTTGAGCCCCGGGACACGCTGAGGTATTTTCAATTTCTGCTTTTC-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCA
121978592 -AAAAAATCAA
66 AAAAAAATCAA
* * *
121978602 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTTCAATTTTTATTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATTTCTGTTTT
*
121978666 TCAATTCATGTTTCCAAAATCAA
63 TCAA---A------AAAAATCAA
* *
121978689 CTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTACT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTG---T--T
*****
121978754 AATTCTGCTTTTCAAATCAA
61 --TT-T-CAAAAAAAATCAA
* * * *
121978774 CTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACGCTGAGGTCTTTTCAAATTCTGTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTTCTGTTTTT
121978839 CAA
64 CAA
121978842 TTTCTATTTT
Statistics
Matches: 1193, Mismatches: 169, Indels: 286
0.72 0.10 0.17
Matches are distributed among these distances:
71 65 0.05
72 8 0.01
73 117 0.10
74 63 0.05
75 66 0.06
76 121 0.10
77 43 0.04
78 154 0.13
79 112 0.09
80 5 0.00
81 14 0.01
82 12 0.01
83 8 0.01
84 6 0.01
85 67 0.06
86 104 0.09
87 133 0.11
88 39 0.03
89 6 0.01
90 5 0.00
92 30 0.03
93 1 0.00
94 12 0.01
95 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (76 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCA
AAAAAAATCAA
Found at i:121977714 original size:87 final size:87
Alignment explanation
Indices: 121977533--121977714 Score: 244
Period size: 87 Copynumber: 2.1 Consensus size: 87
121977523 CGTTGAGGTA
*
121977533 TTTTCAATTTCTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAT
1 TTTTCAATTTCTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
* * *
121977598 GCTGAGGTGTTTTCCATTTCTG
66 GCTGAGGTATTTTCAATTTATG
* * *
121977620 TTCTTCAATTTCTGTT-TTTC-AAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 TT-TTCAATTTCT-TTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA-A
121977683 GCACGCTGAGGTATTTTCAATTTAT-
63 G-ACGCTGAGGTATTTTCAATTTATG
121977708 TTTTCAA
1 TTTTCAA
121977715 AAATCAACTC
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
87 46 0.55
88 17 0.20
89 21 0.25
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (87 bp):
TTTTCAATTTCTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
GCTGAGGTATTTTCAATTTATG
Found at i:121977743 original size:71 final size:71
Alignment explanation
Indices: 121977642--121977861 Score: 350
Period size: 71 Copynumber: 3.1 Consensus size: 71
121977632 TGTTTTTCAA
*
121977642 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTA
121977707 TTTTTC
66 TTTTTC
* *
121977713 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTAGGGCACGCTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTA
121977778 TTTTTC
66 TTTTTC
* * * * *
121977784 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTA
121977849 TGTCTTTC
66 T-T-TTTC
121977857 AAAAA
1 AAAAA
121977862 AAAATCAAAA
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
71 127 0.93
72 1 0.01
73 9 0.07
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTA
TTTTTC
Found at i:121978097 original size:14 final size:14
Alignment explanation
Indices: 121978078--121978112 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
121978068 TGTTGAGGTA
*
121978078 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
121978092 TTTTCAATTTATGT
1 TTTTCAATTTATGT
121978106 TTTTCAA
1 TTTTCAA
121978113 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:121978154 original size:87 final size:86
Alignment explanation
Indices: 121978002--121978441 Score: 447
Period size: 87 Copynumber: 5.1 Consensus size: 86
121977992 ACTGAGGTAT
* * **
121978002 TTTTTCAATTTATATTTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTTAGGAC
1 TTTTTCAATTTAT-GTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAC
*
121978067 ATGTTGAGGTATTTTCAATTTCTG
63 ATGCTGAGGTATTTTCAATTTCTG
* *
121978091 TTTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGGGACAC
1 TTTTTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAT
121978156 GCTGAGGTATTTTCAATTTCT-
65 GCTGAGGTATTTTCAATTTCTG
*
121978177 TCTTTTCAA---A-------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
1 T-TTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GAC
121978232 ATGCTGAGGTATTTTCAATTTCT-
63 ATGCTGAGGTATTTTCAATTTCTG
*** * * * * *
121978255 AACTTCAATTTCTG-TTTCCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCATCGGCTCACA
1 TTTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACA
121978319 TGCTGAGGTATTTTCAATTTCTG
64 TGCTGAGGTATTTTCAATTTCTG
* * *
121978342 TTTTTCAATTTCTGTCTTTCAAAAAAAAATTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAG
1 TTTTTCAATTTATGT-TTTC----AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
** **
121978407 GACACACTGAGGTAACTTCAATTTCTG
60 GACATGCTGAGGTATTTTCAATTTCTG
121978434 TTTTTCAA
1 TTTTTCAA
121978442 AAATCAACTC
Statistics
Matches: 302, Mismatches: 28, Indels: 39
0.82 0.08 0.11
Matches are distributed among these distances:
76 39 0.13
77 5 0.02
78 24 0.08
84 1 0.00
86 66 0.22
87 78 0.26
89 22 0.07
92 30 0.10
93 4 0.01
94 33 0.11
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (86 bp):
TTTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATG
CTGAGGTATTTTCAATTTCTG
Found at i:121978187 original size:73 final size:73
Alignment explanation
Indices: 121978092--121978349 Score: 241
Period size: 86 Copynumber: 3.3 Consensus size: 73
121978082 CAATTTCTGT
* *
121978092 TTTTCAATTTATGT-TTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCGGGACAC
1 TTTTCAATTTCT-TCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
121978156 GCTGAGGTA
65 GCTGAGGTA
*
121978165 TTTTCAATTTCTTCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
1 TTTTCAATTTCTTCTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--G
*
121978230 ACATGCTGAGGTA
61 ACACGCTGAGGTA
* *
121978243 TTTTCAATTTCTAACTTCAATTTCTGTTTCCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
1 TTTTCAA----T---TTC---TTCT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
121978308 ATCGGCTCACATGCTGAGGTA
55 CTCGG--GACACGCTGAGGTA
121978329 TTTTCAATTTCTGT-TTTTCAA
1 TTTTCAATTTCT-TCTTTTCAA
121978350 TTTCTGTCTT
Statistics
Matches: 159, Mismatches: 8, Indels: 34
0.79 0.04 0.17
Matches are distributed among these distances:
72 1 0.01
73 16 0.10
75 5 0.03
76 41 0.26
77 1 0.01
78 19 0.12
79 3 0.02
82 2 0.01
85 3 0.02
86 60 0.38
88 4 0.03
89 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (73 bp):
TTTTCAATTTCTTCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
CTGAGGTA
Found at i:121978348 original size:14 final size:14
Alignment explanation
Indices: 121978329--121978363 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
121978319 TGCTGAGGTA
121978329 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
121978343 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
121978357 CTTTCAA
1 TTTTCAA
121978364 AAAAAAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:121978552 original size:79 final size:77
Alignment explanation
Indices: 121978366--121978832 Score: 438
Period size: 79 Copynumber: 5.9 Consensus size: 77
121978356 TCTTTCAAAA
* * * **
121978366 AAAAATTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAACTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
121978431 C----TGTTTTTC
65 CTTTATGCTTTTC
*
121978440 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACTCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT-
121978505 CGTTTATGCTTTTC
65 C-TTTATGCTTTTC
*
121978519 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-CCGGGACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CACGCTGAGGTATTTTCAATTT
121978583 C----TGCTTTTC
65 CTTTATGCTTTTC
*
121978592 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTTCAA
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCAC--GCTGAGGTATTTTCAA
* *
121978656 TTTTTATTTTTCAATTCATGTTTC
62 ---TT-TCTTT--ATGC-T-TTTC
* *
121978680 CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA-TT-
121978745 TGCTTTACTAATTCTGCTTTTC
64 T-C-TT--T-A---TGCTTTTC
* * *
121978767 --AAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC-GGGCCACACGCTGAGGTCTTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG---CACGCTGAGGTATTTTCAAT
121978829 TTCT
63 TTCT
121978833 GTTTTTCAAT
Statistics
Matches: 337, Mismatches: 21, Indels: 61
0.80 0.05 0.15
Matches are distributed among these distances:
73 62 0.18
74 47 0.14
75 1 0.00
76 16 0.05
78 5 0.01
79 66 0.20
80 1 0.00
83 5 0.01
84 4 0.01
85 53 0.16
86 5 0.01
87 63 0.19
88 7 0.02
89 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (77 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
TTTATGCTTTTC
Found at i:121978783 original size:85 final size:84
Alignment explanation
Indices: 121978581--121978843 Score: 305
Period size: 87 Copynumber: 3.0 Consensus size: 84
121978571 TATTTTCAAT
*
121978581 TTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAG
1 TTCTGCTTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCAC--GCTGAG
* ** *
121978646 GTATTTTCAATTTTTATTTTTCAA
61 GTATTTTCAATTTCTGCTTTACAA
* *
121978670 TTCATG-TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCACGCTGAGGTA
1 TTC-TGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGGCACGCTGAGGTA
121978734 TTTTCAATTTCTGCTTTACTAA
64 TTTTCAATTTCTGCTTTAC-AA
*
121978756 TTCTGCTTTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACGCTGAGGT
1 TTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG---CACGCTGAGGT
* * * *
121978820 CTTTTCAAATTCTGTTTTTCAA
63 ATTTTCAATTTCTGCTTTACAA
121978842 TT
1 TT
121978844 TCTATTTTTT
Statistics
Matches: 153, Mismatches: 14, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
84 4 0.03
85 59 0.39
86 13 0.08
87 65 0.42
88 3 0.02
89 7 0.05
90 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (84 bp):
TTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATT
TTCAATTTCTGCTTTACAA
Found at i:121978840 original size:14 final size:14
Alignment explanation
Indices: 121978821--121978870 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
121978811 CGCTGAGGTC
121978821 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
* *
121978835 TTTTCAATTTCTAT
1 TTTTCAAATTCTGT
* *
121978849 TTTTTAATTTCTGT
1 TTTTCAAATTCTGT
*
121978863 GTTTCAAA
1 TTTTCAAA
121978871 AAAAAATCAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:121978960 original size:15 final size:14
Alignment explanation
Indices: 121978926--121978976 Score: 84
Period size: 14 Copynumber: 3.6 Consensus size: 14
121978916 CGTTGAGGTA
*
121978926 TTTTCAATTTCTGC
1 TTTTCAATTTCTGT
121978940 TTTTCAATTTCTGTT
1 TTTTCAATTTCTG-T
121978955 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
121978969 TTTTCAAT
1 TTTTCAAT
121978977 AATCAACTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.16, C:0.16, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:121979112 original size:54 final size:54
Alignment explanation
Indices: 121978955--121979449 Score: 723
Period size: 54 Copynumber: 9.0 Consensus size: 54
121978945 AATTTCTGTT
*
121978955 TTTTCAATTTCTGTTTTTCAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
121979010 TTTTAATTTCTGTTTTTCAAAAAAACCAACTCATATTACGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
121979066 TTCTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
121979120 TTTTAATTTCTGTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
121979174 TTTTAATTTCTGTTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
121979230 TTTTAATTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 ------TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
121979290 TTTTAATTTCTGTTTTT-AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
121979343 --TT--TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
121979393 TTTTGCAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCC
1 TTTT--AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
121979448 TT
1 TT
121979450 GGCTCACGTG
Statistics
Matches: 405, Mismatches: 18, Indels: 34
0.89 0.04 0.07
Matches are distributed among these distances:
49 11 0.03
50 34 0.08
51 2 0.00
52 2 0.00
53 35 0.09
54 133 0.33
55 44 0.11
56 91 0.22
60 35 0.09
62 18 0.04
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:121979164 original size:164 final size:164
Alignment explanation
Indices: 121978955--121979441 Score: 756
Period size: 164 Copynumber: 3.0 Consensus size: 164
121978945 AATTTCTGTT
* *
121978955 TTTTCAATTTCTGTTTTTCAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TTTT-AATTTCTGTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
* *
121979020 TGTTTTTCAAAAAAACCAACTCATATTACGAGAGGTGAGTTGAGCCTTCTAATTTCTGTTTTTCA
65 TGTTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCA
121979085 AAAATCAACTCATATTGCGAGAGGTGAGTGGAGCC
130 AAAATCAACTCATATTGCGAGAGGTGAGTGGAGCC
121979120 TTTTAATTTCTGTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
1 TTTTAATTTCTGTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
121979185 GTTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTTAATTTCTGTT
66 GTTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC------TTTTAATTTCTGTT
*
121979250 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
125 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCC
121979290 TTTTAATTTCTGTTTTT-AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT--TTTCT
1 TTTTAATTTCTGTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
* * *
121979350 GTTTTTC--AAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTTTTGCAAATTCTG-TTTTC
66 GTTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTCTGTTTTTC
*
121979412 AAAAATCAACTCATATTGCGAGAAGTGAGT
129 AAAAATCAACTCATATTGCGAGAGGTGAGT
121979442 TAAGCCTTGG
Statistics
Matches: 305, Mismatches: 9, Indels: 23
0.91 0.03 0.07
Matches are distributed among these distances:
157 4 0.01
158 34 0.11
159 7 0.02
163 34 0.11
164 103 0.34
165 16 0.05
167 2 0.01
169 36 0.12
170 69 0.23
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (164 bp):
TTTTAATTTCTGTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
GTTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAA
AAATCAACTCATATTGCGAGAGGTGAGTGGAGCC
Found at i:121979198 original size:110 final size:108
Alignment explanation
Indices: 121978955--121979449 Score: 723
Period size: 110 Copynumber: 4.5 Consensus size: 108
121978945 AATTTCTGTT
*
121978955 TTTTCAATTTCTGTTTTTCAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
*
121979020 TGTTTTTCAAAAAAACCAACTCATATTACGAGAGGTGAGTTGAGCC
65 TGTTTTTC--AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
121979066 TTCTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTTTTAATTTCT
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
121979131 GTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 GTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
121979174 TTTTAATTTCTGTTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTT
1 TTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC------TTT
*
121979239 TAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
58 TAATTTCTGTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
121979290 TTTTAATTTCTGTTTTT-AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT--TTTCT
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
* *
121979350 GTTTTTCAAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCC
66 GTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
121979393 TTTTGCAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTT
1 TTTT--AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
121979450 GGCTCACGTG
Statistics
Matches: 358, Mismatches: 13, Indels: 30
0.89 0.03 0.07
Matches are distributed among these distances:
103 51 0.14
104 4 0.01
105 42 0.12
108 52 0.15
110 100 0.28
111 3 0.01
113 36 0.10
116 70 0.20
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (108 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
GTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:121979711 original size:8 final size:8
Alignment explanation
Indices: 121979700--121979729 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
121979690 TAAAATTTCA
121979700 AAAAAAAT
1 AAAAAAAT
121979708 AAAAAAAT
1 AAAAAAAT
*
121979716 TAAAAAAT
1 AAAAAAAT
121979724 AAAAAA
1 AAAAAA
121979730 TTCATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:121979760 original size:29 final size:29
Alignment explanation
Indices: 121979727--121979812 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
121979717 AAAAAATAAA
121979727 AAATTCATTTTGACCCTTAAACTTTCTTT
1 AAATTCATTTTGACCCTTAAACTTTCTTT
* * *
121979756 AAATTTCACTTAGACCCCTAAACTTTCTTT
1 AAA-TTCATTTTGACCCTTAAACTTTCTTT
* * *
121979786 AAATT-ATATTTTAACCTTAAATTTTCT
1 AAATTCAT-TTTGACCCTTAAACTTTCT
121979813 AAAAATTACA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.02
29 19 0.41
30 26 0.57
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (29 bp):
AAATTCATTTTGACCCTTAAACTTTCTTT
Found at i:121980584 original size:31 final size:34
Alignment explanation
Indices: 121980516--121980588 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
121980506 GGGTAATATG
* *
121980516 TTAAGTTAGTGGGTTGGGTTGGTTGTGTTGGGTTTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGTT--GATTA
*
121980552 TTAAGTTAGTGAGTTGGGTTGGTT-TGTATTATTA
1 TTAAGTTAGTGAGTTGGGTTGGTTGTGT-TGATTA
121980586 TTA
1 TTA
121980589 TTATTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 6 0.18
35 3 0.09
36 24 0.73
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (34 bp):
TTAAGTTAGTGAGTTGGGTTGGTTGTGTTGATTA
Found at i:121980586 original size:3 final size:3
Alignment explanation
Indices: 121980578--121980623 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
121980568 GGTTGGTTTG
121980578 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
121980624 TTAAATTAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:121981344 original size:18 final size:18
Alignment explanation
Indices: 121981323--121981367 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
121981313 AAAATTCAGG
*
121981323 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTAGTGT
121981341 TTTC-AAAATTTTAGTGT
1 TTTCAAAAATTTTAGTGT
121981358 TTT-AAAAATT
1 TTTCAAAAATT
121981368 CTCATTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCAAAAATTTTAGTGT
Found at i:121983237 original size:97 final size:98
Alignment explanation
Indices: 121983070--121983265 Score: 385
Period size: 97 Copynumber: 2.0 Consensus size: 98
121983060 ATAAGTTACT
121983070 TGAGATTAGAATTTTAGTACTATTTTTTTTTTTGTTTTATAAGTGGTCAGTGGAGAATAACTATT
1 TGAGATTAGAATTTTAGTACTATTTTTTTTTTTGTTTTATAAGTGGTCAGTGGAGAATAACTATT
121983135 GTTTTATGTTTACAGAAACCTAAATGATAACAG
66 GTTTTATGTTTACAGAAACCTAAATGATAACAG
121983168 TGAGATTAGAATTTTAGTACTA-TTTTTTTTTTGTTTTATAAGTGGTCAGTGGAGAATAACTATT
1 TGAGATTAGAATTTTAGTACTATTTTTTTTTTTGTTTTATAAGTGGTCAGTGGAGAATAACTATT
121983232 GTTTTATGTTTACAGAAACCTAAATGATAACAG
66 GTTTTATGTTTACAGAAACCTAAATGATAACAG
121983265 T
1 T
121983266 CTTAATGGCT
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 76 0.78
98 22 0.22
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (98 bp):
TGAGATTAGAATTTTAGTACTATTTTTTTTTTTGTTTTATAAGTGGTCAGTGGAGAATAACTATT
GTTTTATGTTTACAGAAACCTAAATGATAACAG
Found at i:121989813 original size:30 final size:30
Alignment explanation
Indices: 121989778--121989850 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
121989768 CACAGCCAAC
121989778 CACACGCCTGTGTGCCCTTCGAAGTGGCCA
1 CACACGCCTGTGTGCCCTTCGAAGTGGCCA
121989808 CACACGCCTGTGTGCCCTTCGAAGTGGCCA
1 CACACGCCTGTGTGCCCTTCGAAGTGGCCA
*
121989838 CACACGCCCGTGT
1 CACACGCCTGTGT
121989851 ATCAACCTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.16, C:0.38, G:0.26, T:0.19
Consensus pattern (30 bp):
CACACGCCTGTGTGCCCTTCGAAGTGGCCA
Found at i:121991094 original size:40 final size:40
Alignment explanation
Indices: 121990948--121991094 Score: 213
Period size: 40 Copynumber: 3.7 Consensus size: 40
121990938 AACTATCTTA
* * * *
121990948 AATCGCAAACTAAGTGCCATATATAGTCGAAGATATGTCG
1 AATCGCACACTAAGTGCCACATATAGCCGAAGCTATGTCG
* * *
121990988 AATCACACACTAAGTGCCATATATAGTCGAAGCTATGTCG
1 AATCGCACACTAAGTGCCACATATAGCCGAAGCTATGTCG
* *
121991028 AATCTCACACTAAGTGCCACATATAGCCGAAGCTATGTTG
1 AATCGCACACTAAGTGCCACATATAGCCGAAGCTATGTCG
121991068 AATCGCACACTAAGTGCCACATATAGC
1 AATCGCACACTAAGTGCCACATATAGC
121991095 TGATTTGTTG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (40 bp):
AATCGCACACTAAGTGCCACATATAGCCGAAGCTATGTCG
Found at i:121994277 original size:18 final size:18
Alignment explanation
Indices: 121994256--121994297 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
121994246 AATATAATGA
121994256 TAAT-TTTAAATTTTATAT
1 TAATATTTAAA-TTTATAT
*
121994274 TAATATTTATATTTATAT
1 TAATATTTAAATTTATAT
*
121994292 TTATAT
1 TAATAT
121994298 GAATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TAATATTTAAATTTATAT
Found at i:121994282 original size:12 final size:12
Alignment explanation
Indices: 121994267--121994304 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
121994257 AATTTTAAAT
121994267 TTTATATTAATA
1 TTTATATTAATA
*
121994279 TTTATATTTATA
1 TTTATATTAATA
*
121994291 TTTATATGAATA
1 TTTATATTAATA
121994303 TT
1 TT
121994305 AAATAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (12 bp):
TTTATATTAATA
Found at i:121994285 original size:6 final size:6
Alignment explanation
Indices: 121994267--121994297 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
121994257 AATTTTAAAT
*
121994267 TTTATA TTAATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA TTTATA T
121994298 GAATATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTATA
Found at i:121994315 original size:25 final size:26
Alignment explanation
Indices: 121994287--121994342 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
121994277 TATTTATATT
* * *
121994287 TATATTTATATGAATATTAAATAA-A
1 TATAATTACATGAATATTAAAAAACA
*
121994312 TATAATTACATTAATATTAAAAAACA
1 TATAATTACATGAATATTAAAAAACA
121994338 TATAA
1 TATAA
121994343 ATCCCCATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (26 bp):
TATAATTACATGAATATTAAAAAACA
Found at i:121995717 original size:30 final size:31
Alignment explanation
Indices: 121995683--121995740 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
121995673 TTTCGCTTCT
* *
121995683 TAAAAATTATAAA-ATGTAATTTAATATTTC
1 TAAAAATTATAAATATATAAGTTAATATTTC
121995713 TAAAAATTATAAATATATAAGTTAATAT
1 TAAAAATTATAAATATATAAGTTAATAT
121995741 AATGGTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (31 bp):
TAAAAATTATAAATATATAAGTTAATATTTC
Found at i:121998612 original size:3 final size:3
Alignment explanation
Indices: 121998604--121998683 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
121998594 AAGATTTTAG
*
121998604 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
121998652 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
121998684 TGTTTATAGA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:122000734 original size:19 final size:19
Alignment explanation
Indices: 122000691--122000728 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
122000681 TTTTAAATAA
122000691 TATAAA-ATTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
122000709 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
122000728 T
1 T
122000729 GAAAATCGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:122003173 original size:24 final size:23
Alignment explanation
Indices: 122003125--122003169 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
122003115 TATTCCCCAC
*
122003125 TTTTTCTTAATATGGTATCTAAT
1 TTTTTCTTAATATAGTATCTAAT
* *
122003148 TTTTTTTTAATTTAGTATCTAA
1 TTTTTCTTAATATAGTATCTAA
122003170 ATTTGACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTTTCTTAATATAGTATCTAAT
Found at i:122003290 original size:27 final size:26
Alignment explanation
Indices: 122003231--122003291 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
122003221 TGGTACATGA
*
122003231 ACTTAACATTTTTTTTTCTAATTTAGT
1 ACTTAA-ATTTTTTTTTCCAATTTAGT
* * *
122003258 AATTAAATTTTTTTTGTCCAGTTTGGT
1 ACTTAAATTTTTTTT-TCCAATTTAGT
122003285 ACTTAAA
1 ACTTAAA
122003292 CTTGGTGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (26 bp):
ACTTAAATTTTTTTTTCCAATTTAGT
Found at i:122007415 original size:18 final size:19
Alignment explanation
Indices: 122007377--122007415 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
122007367 TGGTTCAAGC
*
122007377 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
122007396 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
122007414 TT
1 TT
122007416 CTTAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:122007789 original size:46 final size:46
Alignment explanation
Indices: 122007720--122007896 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
122007710 CTAAACATAC
*
122007720 GCAACGTGACATGAAATGAATAAGACCATGGTTAAAAGATACCATG
1 GCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATG
* * *
122007766 GTAACGTGACATGAAATGAATAAGACTATGGTCGAAAGATACCAT-
1 GCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATG
* ** *
122007811 GCAACATGACGGGGAAATGAATAAAACCATGGTTGAAAGATACCATG
1 GCAACGTGAC-ATGAAATGAATAAGACCATGGTTGAAAGATACCATG
* * * *
122007858 ACAACCTGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 GCAACGTGACATG-AAATGAATAAGACCATGGTTGAAAGA
122007897 CGCTATGACA
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
45 9 0.08
46 94 0.85
47 8 0.07
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.19
Consensus pattern (46 bp):
GCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATG
Found at i:122008462 original size:46 final size:46
Alignment explanation
Indices: 122008395--122008560 Score: 289
Period size: 46 Copynumber: 3.6 Consensus size: 46
122008385 ATCCATTCCC
122008395 TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCAAT-G
1 TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCC-ATGG
*
122008441 TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGG
* *
122008487 TATCTTTCAACCATGATCTTACACATTTCATATCATGTTGTCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGG
122008533 TATCTTTCAACCATGGTCTTACACATTT
1 TATCTTTCAACCATGGTCTTACACATTT
122008561 GAATCGCGAT
Statistics
Matches: 114, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.02
46 112 0.98
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.41
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGG
Found at i:122008599 original size:45 final size:45
Alignment explanation
Indices: 122008535--122008650 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 45
122008525 TGTCATGGTA
* * *
122008535 TCTTTCAACCATGGTCTTACACATTTGAATCGCGATGTCATAGCG
1 TCTTTCAACTATGGTCTTACTCATTTGAATCGCGATGCCATAGCG
* * * * *
122008580 TCTTTCAACTATAGCCTTACTCGTCTGAATCGTGATGCCATAGCG
1 TCTTTCAACTATGGTCTTACTCATTTGAATCGCGATGCCATAGCG
*
122008625 TCTTTCACCTATGGTCTTACTCATTT
1 TCTTTCAACTATGGTCTTACTCATTT
122008651 TTGGTATGAT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.37
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTCATTTGAATCGCGATGCCATAGCG
Found at i:122008745 original size:33 final size:32
Alignment explanation
Indices: 122008708--122008785 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
122008698 TGGCCTAGCC
* * *
122008708 ATGGTCTTACACTCGTGGTGCCATATCCCAGAT
1 ATGGTCTTACACTAG-GATGCCATAACCCAGAT
* * *
122008741 ATGGTCTTATCATTAGGATGCCATAACCTAGCT
1 ATGGTCTTA-CACTAGGATGCCATAACCCAGAT
122008774 ATGGTCTTACAC
1 ATGGTCTTACAC
122008786 ATATATTGCC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 2 0.05
33 31 0.84
34 4 0.11
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACACTAGGATGCCATAACCCAGAT
Found at i:122029373 original size:19 final size:18
Alignment explanation
Indices: 122029346--122029384 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
122029336 CAGAACACTG
122029346 TAATAAATATCTATTTTCA
1 TAATAAATATCT-TTTTCA
* *
122029365 TAATTAATATGTTTTTCA
1 TAATAAATATCTTTTTCA
122029383 TA
1 TA
122029385 TTTTTTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (18 bp):
TAATAAATATCTTTTTCA
Found at i:122039221 original size:22 final size:22
Alignment explanation
Indices: 122039194--122039240 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
122039184 CTTTTTATAA
*
122039194 TTTATATAATTTTTCATTTAAT
1 TTTATATAATTTTTAATTTAAT
**
122039216 TTTATATCTTTTTTAATTTAAT
1 TTTATATAATTTTTAATTTAAT
122039238 TTT
1 TTT
122039241 TTTAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTATATAATTTTTAATTTAAT
Found at i:122039243 original size:14 final size:14
Alignment explanation
Indices: 122039210--122039252 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
122039200 TAATTTTTCA
122039210 TTTAATTTTATATCTTT
1 TTTAA-TTTA-AT-TTT
122039227 TTTAATTTAATTTT
1 TTTAATTTAATTTT
*
122039241 TTTAAATTAATT
1 TTTAATTTAATT
122039253 GATTATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 14 0.56
15 2 0.08
16 4 0.16
17 5 0.20
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTAATTTAATTTT
Found at i:122040920 original size:23 final size:23
Alignment explanation
Indices: 122040896--122040938 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
122040886 TATAATAAAT
*
122040896 ATATTT-T-TTTTATTTTTAATC
1 ATATTTATATTTTAATTTTAATC
122040917 ATATTTATATTTTAATTTTAAT
1 ATATTTATATTTTAATTTTAAT
122040939 TTTAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATTTATATTTTAATTTTAATC
Found at i:122041022 original size:38 final size:39
Alignment explanation
Indices: 122040961--122041038 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
122040951 AATTTTTATT
122040961 ATATTTTTTAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATTTTTTAATTTGTGTATTGTTTTAAGAATTGTTTTA
* * * * *
122041000 ATATTTTTT-TTTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATTTTTTAATTTGTGTATTGTTTTAAGAATTGTTTTA
122041038 A
1 A
122041039 ATGTATTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
38 25 0.74
39 9 0.26
ACGTcount: A:0.22, C:0.01, G:0.10, T:0.67
Consensus pattern (39 bp):
ATATTTTTTAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:122042147 original size:10 final size:10
Alignment explanation
Indices: 122042132--122042168 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
122042122 TAAAATAATA
122042132 AAATAAAAAT
1 AAATAAAAAT
122042142 AAATAAAAAT
1 AAATAAAAAT
122042152 -AATAAAACA-
1 AAATAAAA-AT
122042161 AAATAAAA
1 AAATAAAA
122042169 TAATATCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:122042168 original size:18 final size:17
Alignment explanation
Indices: 122042123--122042173 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 17
122042113 GCTTAATCCT
122042123 AAAATAATAA-AATAAAA
1 AAAATAA-AATAATAAAA
122042140 ATAAATAAAAATAATAAAA
1 A-AAAT-AAAATAATAAAA
122042159 CAAAATAAAATAATA
1 -AAAATAAAATAATA
122042174 TCTTCTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.03
18 15 0.50
19 13 0.43
20 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAATAAAATAATAAAA
Found at i:122042171 original size:24 final size:24
Alignment explanation
Indices: 122042123--122042167 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
122042113 GCTTAATCCT
*
122042123 AAAATAATAAAATAAAAATAAATA
1 AAAATAATAAAACAAAAATAAATA
122042147 AAAATAATAAAAC-AAAATAAA
1 AAAATAATAAAACAAAAATAAA
122042168 ATAATATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (24 bp):
AAAATAATAAAACAAAAATAAATA
Found at i:122043795 original size:3 final size:3
Alignment explanation
Indices: 122043787--122043812 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
122043777 TGTTATTAAC
122043787 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
122043813 CTTACCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:122048080 original size:16 final size:16
Alignment explanation
Indices: 122048059--122048113 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
122048049 GTTTGGTTCA
*
122048059 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
122048075 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
122048091 CTGTAATGAAATAGAG
1 CTGTAATGGAATAGAG
*
122048107 CTATAAT
1 CTGTAAT
122048114 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:122048352 original size:59 final size:59
Alignment explanation
Indices: 122048289--122048457 Score: 200
Period size: 59 Copynumber: 2.7 Consensus size: 59
122048279 TTATAATAGG
122048289 ATTATTATTAAATATAATTTAATAATAAAA-AATAAATAATTTAAT-CATACTTTAATATA
1 ATTATTATTAAATATAATTTAATAA-AAAATAATAAATAATTTAATACATAC-TTAATATA
* *
122048348 ATTATTATTAAATATAATTTAATAAAGATAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAA-A-AATAATAAATAATTTAAT-ACATACTTAATATA
*
122048410 ATTATTATTAAAATATGAA-TGAATAAAAAACATAATAAATAATATTAA
1 ATTATTATT-AAATAT-AATTTAAT-AAAAA-ATAATAAATAAT-TTAA
122048458 AAAATAGTAT
Statistics
Matches: 96, Mismatches: 4, Indels: 15
0.83 0.03 0.13
Matches are distributed among these distances:
58 1 0.01
59 26 0.27
60 2 0.02
61 14 0.15
62 18 0.19
63 26 0.27
64 9 0.09
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAAATAATAAATAATTTAATACATACTTAATATA
Found at i:122049483 original size:26 final size:26
Alignment explanation
Indices: 122049450--122049559 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
122049440 TGATACAAAT
122049450 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
122049476 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
122049502 TGATAACGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
122049528 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
122049554 TGATAA
1 TGATAA
122049560 GAATTTCATG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:122052292 original size:25 final size:25
Alignment explanation
Indices: 122052259--122052316 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
122052249 ATTTATTGAG
122052259 TTTGC-GAATCTCAACAATGCCTTC
1 TTTGCTGAATCTCAACAATGCCTTC
122052283 TTTGCTGAATCTCAACAATGCCTTC
1 TTTGCTGAATCTCAACAATGCCTTC
*
122052308 TCTGCTGAA
1 TTTGCTGAA
122052317 ATATCAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (25 bp):
TTTGCTGAATCTCAACAATGCCTTC
Found at i:122056018 original size:49 final size:48
Alignment explanation
Indices: 122055914--122056018 Score: 106
Period size: 49 Copynumber: 2.2 Consensus size: 48
122055904 TACACTAGTA
* *
122055914 AAAAAAAAACAAATTTGGTGATGGTCTGTAGATGGCCAGCACTAGACT
1 AAAAAAAAACAAATTTGGTGATGGGCTGTAGATGGCCAGCACCAGACT
* * * * *
122055962 AATAAAAAACAAATTTTGGTGCTGGGCATGTA-CTGG-TAGGCACCAGAGT
1 AAAAAAAAACAAA-TTTGGTGATGGGC-TGTAGATGGCCA-GCACCAGACT
122056011 AAAAAAAA
1 AAAAAAAA
122056019 GAAAATTACA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
48 13 0.28
49 29 0.63
50 4 0.09
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (48 bp):
AAAAAAAAACAAATTTGGTGATGGGCTGTAGATGGCCAGCACCAGACT
Found at i:122056188 original size:28 final size:28
Alignment explanation
Indices: 122056151--122056212 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
122056141 ATCATCAAAT
* *
122056151 GAGTTTTTTTATAGTGGATTGTAGATGG
1 GAGTTTTTTTATAATGGATTGTAGATGA
*
122056179 GAGTTTTTTTGTAATGGATTGTAGATGA
1 GAGTTTTTTTATAATGGATTGTAGATGA
122056207 GAGTTT
1 GAGTTT
122056213 CTCGTAGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.47
Consensus pattern (28 bp):
GAGTTTTTTTATAATGGATTGTAGATGA
Found at i:122059736 original size:25 final size:25
Alignment explanation
Indices: 122059696--122059765 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
122059686 TCTCTTTCTT
* *
122059696 TTGCA-TTCATCCCATGCATTTGCA
1 TTGCATTTCATCACATGCATTTCCA
122059720 TTGCATTTCATCACATGCATTTCCA
1 TTGCATTTCATCACATGCATTTCCA
*
122059745 TTGTATTTCATCACATGCATT
1 TTGCATTTCATCACATGCATT
122059766 ACATTAACCA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 5 0.12
25 37 0.88
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (25 bp):
TTGCATTTCATCACATGCATTTCCA
Found at i:122059740 original size:14 final size:14
Alignment explanation
Indices: 122059721--122059765 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
122059711 GCATTTGCAT
122059721 TGCATTTCATCACA
1 TGCATTTCATCACA
*
122059735 TGCATTTC--CA-T
1 TGCATTTCATCACA
*
122059746 TGTATTTCATCACA
1 TGCATTTCATCACA
122059760 TGCATT
1 TGCATT
122059766 ACATTAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
11 7 0.29
12 2 0.08
13 2 0.08
14 13 0.54
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (14 bp):
TGCATTTCATCACA
Found at i:122060892 original size:15 final size:15
Alignment explanation
Indices: 122060872--122060915 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
122060862 CGACAGTCAT
*
122060872 CAAAAAAACAAAAAA
1 CAAAAAAATAAAAAA
122060887 C-AAAAAATAAAAAA
1 CAAAAAAATAAAAAA
*
122060901 TAAAAAAATAAAAAA
1 CAAAAAAATAAAAAA
122060916 AGGGGTGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (15 bp):
CAAAAAAATAAAAAA
Found at i:122060913 original size:7 final size:7
Alignment explanation
Indices: 122060874--122060915 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
122060864 ACAGTCATCA
*
122060874 AAAAAAC
1 AAAAAAT
*
122060881 AAAAAAC
1 AAAAAAT
122060888 AAAAAAT
1 AAAAAAT
122060895 AAAAAAT
1 AAAAAAT
122060902 AAAAAAAT
1 -AAAAAAT
122060910 AAAAAA
1 AAAAAA
122060916 AGGGGTGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (7 bp):
AAAAAAT
Found at i:122063469 original size:47 final size:47
Alignment explanation
Indices: 122063360--122063470 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
122063350 CCGGGATAAG
* *
122063360 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
122063407 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
122063454 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
122063471 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:122070675 original size:47 final size:47
Alignment explanation
Indices: 122070566--122070676 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
122070556 TCCGGATAAG
* *
122070566 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
122070613 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
122070660 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
122070677 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:122072556 original size:65 final size:66
Alignment explanation
Indices: 122072475--122072602 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 66
122072465 ATTCATATAT
*
122072475 CATTCATAACACATCTAATTAGGAGCATTTGATTCA-TTCAATCATAGCATCCTAATTATTTGAC
1 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGAC
122072539 A
66 A
* * *
122072540 CATTCATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCTTCCTAATCATTTG
1 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTG
122072603 GCATAAGCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
65 35 0.60
66 23 0.40
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (66 bp):
CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGAC
A
Found at i:122072814 original size:87 final size:86
Alignment explanation
Indices: 122072667--122073425 Score: 934
Period size: 87 Copynumber: 8.7 Consensus size: 86
122072657 GAATTCATAA
* * *
122072667 GCCTT-AACTCCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTTTCACCCTAAGCAGTA
1 GCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCTGAATTTAC-GATCTTATCACCCTAAGTAGTA
* * *
122072731 GGGAAATAGATCGAAAGTGATAG
64 GGGAAACAGATCGAAGGCGATAG
* * * *
122072754 ACCTTAAACCCCTAAGCAGTAGGGTAACATGCTAAATTTATCGATCTTATCACCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTA-CGATCTTATCACCCTAAGTAGTAG
* * *
122072819 GGAAATAGATCGAAAGCGATGG
65 GGAAACAGATCGAAGGCGATAG
*** * * * *
122072841 GCCTTAAACTTTTAAGCAGTAGAGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAATAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTAC-GATCTTATCACCCTAAGTAGTAG
*
122072906 GGAAACAGATCGAAGGCGATGG
65 GGAAACAGATCGAAGGCGATAG
* * * *
122072928 GTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATCTTA-AACCCCTGAGTAGTA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTA-CGATCTTATCA-CCCTAAGTAGTA
* * *
122072992 GGGAAACAAATTGAAGGCGATGG
64 GGGAAACAGATCGAAGGCGATAG
* * * * * *
122073015 GCCTTAAACCCTTAAGTAATAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTAC-GATCTTATCACCCTAAGTAGTAG
*
122073080 GGAAACAGATCGAAGGTGATAG
65 GGAAACAGATCGAAGGCGATAG
*
122073102 GCCTTAAACCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTAC-GATCTTATCACCCTAAGTAGTAG
*
122073167 GGAAACAGATCGAAGGCAAT-G
65 GGAAACAGATCGAAGGCGATAG
* * *
122073188 AGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTAAATTTATAGATCTTATCACCCTAAGTAGTA
1 -GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTA-CGATCTTATCACCCTAAGTAGTA
*
122073253 GGGAAACAGATCGAAGGCAAT-G
64 GGGAAACAGATCGAAGGCGATAG
* *
122073275 AGCCTTAAACCCCTAAGCAGTAAGGTAACAGGCTGAATTTACCATCTTATCACCCTAAGTAGTAG
1 -GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACGATCTTATCACCCTAAGTAGTAG
*
122073340 GGAAACAGATCGATGGCGATAG
65 GGAAACAGATCGAAGGCGATAG
* * * * *
122073362 GCCTT-AACCCTCTAAGTAGTAGGGTAACAGGCTGAATTTACCATCCTATCTCCCTAAGCAGTAG
1 GCCTTAAACCC-CTAAGCAGTAGGGTAACAGGCTGAATTTACGATCTTATCACCCTAAGTAGTAG
122073426 CAGAGTAGAT
Statistics
Matches: 593, Mismatches: 68, Indels: 23
0.87 0.10 0.03
Matches are distributed among these distances:
85 5 0.01
86 95 0.16
87 489 0.82
88 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (86 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACGATCTTATCACCCTAAGTAGTAGG
GAAACAGATCGAAGGCGATAG
Found at i:122072820 original size:43 final size:43
Alignment explanation
Indices: 122072676--122072820 Score: 127
Period size: 43 Copynumber: 3.3 Consensus size: 43
122072666 AGCCTTAACT
* * * *
122072676 CCCTAAGCAATAGGGTAACAGGCTGAATTTA-CAGATCTTTTCA
1 CCCTAAGCAGTAGGGTAACATGCTAAATTTATC-GATCTTATCA
* * * * * *
122072719 CCCTAAGCAGTAGGG-AA-ATAGATCGAAAGTGATAGACCTTA-AA
1 CCCTAAGCAGTAGGGTAACAT-G--CTAAATTTATCGATCTTATCA
122072762 CCCCTAAGCAGTAGGGTAACATGCTAAATTTATCGATCTTATCA
1 -CCCTAAGCAGTAGGGTAACATGCTAAATTTATCGATCTTATCA
122072806 CCCTAAGCAGTAGGG
1 CCCTAAGCAGTAGGG
122072821 AAATAGATCG
Statistics
Matches: 78, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 43 0.55
44 26 0.33
45 3 0.04
46 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACATGCTAAATTTATCGATCTTATCA
Found at i:122072905 original size:43 final size:43
Alignment explanation
Indices: 122072853--122073401 Score: 269
Period size: 44 Copynumber: 12.7 Consensus size: 43
122072843 CTTAAACTTT
* * * *
122072853 TAAGCAGTAGAGTAACAGGCTGAATTTACAGATCTTAACCCCC
1 TAAGTAGTAGGGTAACAGGCTGAATTTATAGATCTTAAACCCC
* * * *** * *
122072896 TAAATAGTAGGGAAACA-GATCGAAGGCGATGGGTCTTAAACCCC
1 TAAGTAGTAGGGTAACAGGCT-GAA-TTTATAGATCTTAAACCCC
*
122072940 TAAGCAGTAGGGTAACAGGCTGAATTTATAGATCTTAAACCCC
1 TAAGTAGTAGGGTAACAGGCTGAATTTATAGATCTTAAACCCC
* * *** *** * ** *
122072983 TGAGTAGTAGGGAAACAAATTGAAGGCGATGGGCCTTAAACCCT
1 TAAGTAGTAGGGTAACAGGCTGAA-TTTATAGATCTTAAACCCC
* * *
122073027 TAAGTAATAGGGTAACAGGCTGAATTTACAGATCTTAACCCCC
1 TAAGTAGTAGGGTAACAGGCTGAATTTATAGATCTTAAACCCC
* * * * * **
122073070 TAAGCAGTAGGGAAACA-GATCGAAGGTGATAGGCCTTAAACCCC
1 TAAGTAGTAGGGTAACAGGCT-GAA-TTTATAGATCTTAAACCCC
* *
122073114 TAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTT-ATCACCC
1 TAAGTAGTAGGGTAACAGGCTGAATTTATAGATCTTAAAC-CCC
* * *** *
122073157 TAAGTAGTAGGGAAACA-GATCGAAGGCA-ATGAGCCTTAAACCCC
1 TAAGTAGTAGGGTAACAGGCT-GAATTTATA-GA-TCTTAAACCCC
* * * *
122073201 TAAGCAATAGGGTAACAGGCTAAATTTATAGATCTT-ATCACCC
1 TAAGTAGTAGGGTAACAGGCTGAATTTATAGATCTTAAAC-CCC
* * *** *
122073244 TAAGTAGTAGGGAAACA-GATCGAAGGCA-ATGAGCCTTAAACCCC
1 TAAGTAGTAGGGTAACAGGCT-GAATTTATA-GA-TCTTAAACCCC
* * ** *
122073288 TAAGCAGTAAGGTAACAGGCTGAATTTA-CCATCTT-ATCACCC
1 TAAGTAGTAGGGTAACAGGCTGAATTTATAGATCTTAAAC-CCC
* * ** **
122073330 TAAGTAGTAGGGAAACA-GATCG-ATGGCGATAGGCCTT-AACCCTC
1 TAAGTAGTAGGGTAACAGGCT-GAAT--TTATAGATCTTAAACCC-C
122073374 TAAGTAGTAGGGTAACAGGCTGAATTTA
1 TAAGTAGTAGGGTAACAGGCTGAATTTA
122073402 CCATCCTATC
Statistics
Matches: 357, Mismatches: 121, Indels: 56
0.67 0.23 0.10
Matches are distributed among these distances:
41 6 0.02
42 35 0.10
43 137 0.38
44 162 0.45
45 17 0.05
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (43 bp):
TAAGTAGTAGGGTAACAGGCTGAATTTATAGATCTTAAACCCC
Found at i:122073140 original size:261 final size:260
Alignment explanation
Indices: 122072666--122073402 Score: 1030
Period size: 261 Copynumber: 2.8 Consensus size: 260
122072656 TGAATTCATA
* * *
122072666 AGCCTT-AACTCCCTAAGCAATAGGGTAACAGGCTGAATTTACAGATCTTTTCACCCTAAGCAGT
1 AGCCTTAAAC-CCCTAAGCAATAGGGTAACAGGCTGAATTTATAGATCTTATCACCCTAAGTAGT
* * * * * * *
122072730 AGGGAAATAGATCGAAAGTGATAGACCTTAAACCCCTAAGCAGTAGGGTAACATGCTAAATTTAT
65 AGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTA-
* * * *** *
122072795 CGATCTTATCACCCTAAGCAGTAGGGAAATAGATCGAAAGCGATGGGCCTTAAACTTTTAAGCAG
129 CGATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAGGCCTTAAACCCCTAAGTAG
* * *
122072860 TAGAGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAATAGTAGGGAAACAGATCGAAGGCGA
194 TAGGGTAACAGGCTGAATTTACAGATCTTAACACCCTAAATAGTAGGGAAACAGATCGAAGGCAA
122072925 TG
259 TG
* * * * *
122072927 GGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTATAGATCTTA-AACCCCTGAGTAGT
1 AGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTATAGATCTTATCA-CCCTAAGTAGT
* * * * *
122072991 AGGGAAACAAATTGAAGGCGATGGGCCTTAAACCCTTAAGTAATAGGGTAACAGGCTGAATTTAC
65 AGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTAC
* * *
122073056 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCCTTAAACCCCTAAGTAG
130 -GATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAGGCCTTAAACCCCTAAGTAG
* *
122073121 TAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGCAA
194 TAGGGTAACAGGCTGAATTTACAGATCTTAACACCCTAAATAGTAGGGAAACAGATCGAAGGCAA
122073186 TG
259 TG
*
122073188 AGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTAAATTTATAGATCTTATCACCCTAAGTAGTA
1 AGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTATAGATCTTATCACCCTAAGTAGTA
* * * *
122073253 GGGAAACAGATCGAAGGCAATGAGCCTTAAACCCCTAAGCAGTAAGGTAACAGGCTGAATTTACC
66 GGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACG
* *
122073318 ATCTTATCACCCTAAGTAGTAGGGAAACAGATCGATGGCGATAGGCCTT-AACCCTCTAAGTAGT
131 ATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAGGCCTTAAACCC-CTAAGTAGT
122073382 AGGGTAACAGGCTGAATTTAC
195 AGGGTAACAGGCTGAATTTAC
122073403 CATCCTATCT
Statistics
Matches: 416, Mismatches: 55, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
259 5 0.01
260 76 0.18
261 331 0.80
262 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (260 bp):
AGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAATTTATAGATCTTATCACCCTAAGTAGTA
GGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACG
ATCTTATCACCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAGGCCTTAAACCCCTAAGTAGTA
GGGTAACAGGCTGAATTTACAGATCTTAACACCCTAAATAGTAGGGAAACAGATCGAAGGCAATG
Found at i:122073305 original size:44 final size:44
Alignment explanation
Indices: 122072719--122073305 Score: 201
Period size: 44 Copynumber: 13.5 Consensus size: 44
122072709 GATCTTTTCA
* * *
122072719 CCCTAAGCAGTAGGGAAATAGATCGAAAGTGAT-AGACCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGAG-CCTTAAAC
* * ** * * *
122072763 CCCTAAGCAGTAGGGTAAC--ATGCTAAATTTATCGA-TCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGAT-CGAAGGTAAT-GAGCCTTAAAC
* * ** *
122072805 ACCCTAAGCAGTAGGGAAATAGATCGAAAGCGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGAGCCTTAAAC
*** * * * ** * *
122072850 TTTTAAGCAGTAGAGTAACAG-GCTGAATTTACA-GA-TCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGGTA-ATGAGCCTTAAAC
** ** * *
122072893 CCCTAAATAGTAGGGAAACAGATCGAAGGCGATGGGTCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGAGCCTTAAAC
* * * * *
122072937 CCCTAAGCAGTAGGGTAACAG-GCTGAA-TTTAT-AGATCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGGTAATGAG-CCTTAAAC
* * * * ** *
122072980 CCCTGAGTAGTAGGGAAACAAATTGAAGGCGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGAGCCTTAAAC
* * * * * ** * *
122073024 CCTTAAGTAATAGGGTAACAG-GCTGAATTTACA-GA-TCTTAACC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGGTA-ATGAGCCTTAAAC
*
122073067 CCCTAAGCAGTAGGGAAACAGATCGAAGGTGAT-AGGCCTTAAAC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGA-GCCTTAAAC
* * * ** * *
122073111 CCCTAAGTAGTAGGGTAACAG-GCTGAATTTACA-GA-TCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGATC-GAAGGTA-ATGAGCCTTAAAC
* *
122073153 ACCCTAAGTAGTAGGGAAACAGATCGAAGGCAATGAGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGAGCCTTAAAC
* * * * ** * * *
122073198 CCCTAAGCAATAGGGTAACAG-GCTAAATTTAT-AGATCTT-ATC
1 CCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGAG-CCTTAAAC
* *
122073240 ACCCTAAGTAGTAGGGAAACAGATCGAAGGCAATGAGCCTTAAAC
1 -CCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGAGCCTTAAAC
* *
122073285 CCCTAAGCAGTAAGGTAACAG
1 CCCTAAGCAGTAGGGAAACAG
122073306 GCTGAATTTA
Statistics
Matches: 379, Mismatches: 127, Indels: 74
0.65 0.22 0.13
Matches are distributed among these distances:
42 15 0.04
43 167 0.44
44 181 0.48
45 16 0.04
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGAGCCTTAAAC
Found at i:122073551 original size:88 final size:87
Alignment explanation
Indices: 122073428--122073711 Score: 410
Period size: 88 Copynumber: 3.3 Consensus size: 87
122073418 AGCAGTAGCA
122073428 GAGTAGATCGAAGCTACAAAT-CTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCATTC
1 GAGTAGATCGAAGCTACAAATCCTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCATTC
122073492 GTATCTCCTTGAAGTTCCAGCG
66 GTATCTCCTTGAAGTTCCAGCG
* * * *
122073514 GAGTAGATCAAAGCTATAAATTCCTTCTCCCTGAAATGGCACTAGAGAGGCTCAAAGCCACCATT
1 GAGTAGATCGAAGCTACAAA-TCCTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCATT
* * *
122073579 AGTATCTCCTTGAAGTTCTAACG
65 CGTATCTCCTTGAAGTTCCAGCG
*
122073602 GAGTAGATCGAAGC-AGCAAATCTCTTCTCCCTGAAATGGCACTGGAGAGCCTCGAAGCCACCAT
1 GAGTAGATCGAAGCTA-CAAATC-CTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCAT
* * *
122073666 TCGTATCTCATTGAAGTTTCAGCC
64 TCGTATCTCCTTGAAGTTCCAGCG
* *
122073690 GATTAGATCGAAGCTATAAATC
1 GAGTAGATCGAAGCTACAAATC
122073712 ACAGATCTTA
Statistics
Matches: 173, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
86 18 0.10
87 4 0.02
88 150 0.87
89 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (87 bp):
GAGTAGATCGAAGCTACAAATCCTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCATTC
GTATCTCCTTGAAGTTCCAGCG
Found at i:122073587 original size:44 final size:44
Alignment explanation
Indices: 122073451--122073674 Score: 124
Period size: 44 Copynumber: 5.1 Consensus size: 44
122073441 CTACAAATCT
*
122073451 TCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCATTCGTA
1 TCTCCCTGAAATGGCACTGGAGAGGCTCAAAGCCACCATTCGTA
* * ** * * ** *
122073495 TCTCCTTGAAGTTCCAGC-GGAGTA-GATCAAAGCTATAAATTCCT-
1 TCTCCCTGAAATGGCA-CTGGAG-AGGCTCAAAGCCA-CCATTCGTA
* *
122073539 TCTCCCTGAAATGGCACTAGAGAGGCTCAAAGCCACCATTAGTA
1 TCTCCCTGAAATGGCACTGGAGAGGCTCAAAGCCACCATTCGTA
* * * * * *
122073583 TCTCCTTGAAGT-TCTAAC-GGAGTA-GATCGAAG-CAGCAAATCTC-T-
1 TCTCCCTGAAATGGC--ACTGGAG-AGGCTCAAAGCCA-C-CAT-TCGTA
* *
122073627 TCTCCCTGAAATGGCACTGGAGAGCCTCGAAGCCACCATTCGTA
1 TCTCCCTGAAATGGCACTGGAGAGGCTCAAAGCCACCATTCGTA
122073671 TCTC
1 TCTC
122073675 ATTGAAGTTT
Statistics
Matches: 127, Mismatches: 35, Indels: 36
0.64 0.18 0.18
Matches are distributed among these distances:
42 2 0.02
43 15 0.12
44 93 0.73
45 16 0.13
46 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (44 bp):
TCTCCCTGAAATGGCACTGGAGAGGCTCAAAGCCACCATTCGTA
Found at i:122074457 original size:12 final size:12
Alignment explanation
Indices: 122074440--122074477 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
122074430 AAGATATATC
122074440 AAAAATATATTA
1 AAAAATATATTA
*
122074452 AAAAATATA-CA
1 AAAAATATATTA
122074463 AAAAA-ATATTA
1 AAAAATATATTA
122074474 AAAA
1 AAAA
122074478 GAGGTACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 3 0.13
11 11 0.48
12 9 0.39
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATATATTA
Found at i:122075093 original size:3 final size:3
Alignment explanation
Indices: 122075074--122075534 Score: 115
Period size: 3 Copynumber: 154.0 Consensus size: 3
122075064 TTAGTTAATT
* * * * *
122075074 TTA TTA TTT TTA CTA TTA TTA TTA TTA TAA ATA -TA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
122075121 TTA TTTA CATG TTA TTA TTTC TTT TTC TT- TTA TTA TGGTA TTA TTA
1 TTA -TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA T--TA TTA TTA
* ** * * * * * * *
122075167 TTA TTG CCA TTA TTA CTG TTT TTA TTT TTA TTT TTA TCA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
122075215 -TC TTA TT- TTA TTG TCA TTT TTA CTA CTA TTA TTA TTA TTT TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
122075260 TT- TTT TTA TTT TTT TTA CTA CTA TTA TTA TTA GTA TTA TTG TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * * * ** *
122075308 TTA TCA ATA TAA TTA TTA CTA TTA TTT TTT TTA CAA TTA TTA TT- TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
122075355 CATA CTA TTG TTA CTA TTT TTG TTA TTA TTA TTA TTA TTA TT- TT-
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * **
122075399 TTA CCA -TA TTA TCA TT- TCCTA TTT TTA -TA TTA ACA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * * *
122075444 TTA TTAA TGTA CTA TTA TT- TCCTA TAA TTA TTA TTA TTA CTA ATA TCA
1 TTA TT-A T-TA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
122075492 CTA TTA TCA TT- TT- TTA TTA CTA TTA TTA TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
122075535 CTTACTATCT
Statistics
Matches: 321, Mismatches: 111, Indels: 52
0.66 0.23 0.11
Matches are distributed among these distances:
2 24 0.07
3 274 0.85
4 17 0.05
5 6 0.02
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:122075249 original size:40 final size:40
Alignment explanation
Indices: 122075205--122075291 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
122075195 TATTTTTATC
*
122075205 ATTATTATCATCT-TATTTTATTGTCATTTTTACTACTATT
1 ATTATTAT-ATCTATATTTTATTATCATTTTTACTACTATT
* * * **
122075245 ATTATTATTTTTATATTTTTTTATTTTTTTTACTACTATT
1 ATTATTATATCTATATTTTATTATCATTTTTACTACTATT
122075285 ATTATTA
1 ATTATTA
122075292 GTATTATTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.25, C:0.08, G:0.01, T:0.66
Consensus pattern (40 bp):
ATTATTATATCTATATTTTATTATCATTTTTACTACTATT
Found at i:122076659 original size:22 final size:19
Alignment explanation
Indices: 122076633--122076671 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
122076623 CGCTAAGACA
122076633 CTAATTAATCAACTAGGTAC
1 CTAA-TAATCAACTAGGTAC
122076653 C-AATAATCAACTAGGTAC
1 CTAATAATCAACTAGGTAC
122076671 C
1 C
122076672 AATTTTGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 2 0.11
20 1 0.05
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (19 bp):
CTAATAATCAACTAGGTAC
Found at i:122076661 original size:18 final size:18
Alignment explanation
Indices: 122076638--122076674 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
122076628 AGACACTAAT
122076638 TAATCAACTAGGTACCAA
1 TAATCAACTAGGTACCAA
122076656 TAATCAACTAGGTACCAA
1 TAATCAACTAGGTACCAA
122076674 T
1 T
122076675 TTTGGGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (18 bp):
TAATCAACTAGGTACCAA
Found at i:122077759 original size:11 final size:10
Alignment explanation
Indices: 122077729--122077780 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 10
122077719 CTTCTTTTTT
122077729 TTTCATTTCA
1 TTTCATTTCA
122077739 -TTCTAGTTTCA
1 TTTC-A-TTTCA
122077750 TTTGCATTTCA
1 TTT-CATTTCA
122077761 TTTACATTTACA
1 TTT-CATTT-CA
122077773 TTTCATTT
1 TTTCATTT
122077781 AAATTTTCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
9 3 0.08
10 1 0.03
11 23 0.64
12 8 0.22
13 1 0.03
ACGTcount: A:0.21, C:0.17, G:0.04, T:0.58
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:122077768 original size:17 final size:17
Alignment explanation
Indices: 122077748--122077786 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
122077738 ATTCTAGTTT
*
122077748 CATTTGCATTTCATTTA
1 CATTTACATTTCATTTA
122077765 CATTTACATTTCATTTA
1 CATTTACATTTCATTTA
*
122077782 AATTT
1 CATTT
122077787 TCTATCTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (17 bp):
CATTTACATTTCATTTA
Found at i:122078030 original size:18 final size:18
Alignment explanation
Indices: 122077972--122078032 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
122077962 ATAACATTAA
122077972 TTTTTTTCAT-TTAAATT
1 TTTTTTTCATATTAAATT
* *
122077989 TATTACTTTTCCTAATATAA-T
1 T-TT--TTTTCATATTA-AATT
122078010 TTTTTTTCATATTAAATT
1 TTTTTTTCATATTAAATT
122078028 TTTTT
1 TTTTT
122078033 CAATTCATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
17 3 0.09
18 17 0.50
20 8 0.24
21 4 0.12
22 2 0.06
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTTCATATTAAATT
Found at i:122078108 original size:16 final size:16
Alignment explanation
Indices: 122078087--122078128 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
122078077 TATCGAGGTC
122078087 ATTTAAATTTTT-TCA
1 ATTTAAATTTTTGTCA
122078102 TATTT-AATTTTTGTCA
1 -ATTTAAATTTTTGTCA
122078118 ATTTAAATTTT
1 ATTTAAATTTT
122078129 AAATTTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTTAAATTTTTGTCA
Found at i:122078112 original size:15 final size:15
Alignment explanation
Indices: 122078087--122078128 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
122078077 TATCGAGGTC
122078087 ATTTAAATTTTT-TCA
1 ATTT-AATTTTTGTCA
122078102 TATTTAATTTTTGTCA
1 -ATTTAATTTTTGTCA
*
122078118 ATTTAAATTTT
1 ATTTAATTTTT
122078129 AAATTTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (15 bp):
ATTTAATTTTTGTCA
Found at i:122078338 original size:5 final size:5
Alignment explanation
Indices: 122078330--122078366 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
122078320 TTTTTTTTTG
*
122078330 TCATT TCATT TCATT TCTATT TTATT TCATT TCATT T
1 TCATT TCATT TCATT TC-ATT TCATT TCATT TCATT T
122078367 AGATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (5 bp):
TCATT
Found at i:122078356 original size:16 final size:15
Alignment explanation
Indices: 122078330--122078366 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
122078320 TTTTTTTTTG
122078330 TCATTTCATTTCATT
1 TCATTTCATTTCATT
*
122078345 TCTATTTTATTTCATT
1 TC-ATTTCATTTCATT
122078361 TCATTT
1 TCATTT
122078367 AGATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (15 bp):
TCATTTCATTTCATT
Found at i:122078435 original size:42 final size:42
Alignment explanation
Indices: 122078342--122078461 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
122078332 ATTTCATTTC
* *
122078342 ATTTCTATTTTATT-TCATTTCATTTAGA-T-TTTTTTTTCAA
1 ATTTATATTTT-TTCTCATTTCATTTAAATTATTTTTTTTCAA
* * * *
122078382 TTTTATTTTTTTTCTCATTTCATTTATATTATTTTTTATTTAA
1 ATTTATATTTTTTCTCATTTCATTTAAATTATTTTTT-TTCAA
*
122078425 ATTTA-ATTTTTTCTCATTTCATTTAAATTAATTTTTT
1 ATTTATATTTTTTCTCATTTCATTTAAATTATTTTTTT
122078462 CCTCATTTCA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.03
40 21 0.31
41 2 0.03
42 34 0.51
43 8 0.12
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (42 bp):
ATTTATATTTTTTCTCATTTCATTTAAATTATTTTTTTTCAA
Found at i:122078452 original size:26 final size:26
Alignment explanation
Indices: 122078419--122078724 Score: 193
Period size: 26 Copynumber: 12.3 Consensus size: 26
122078409 ATTATTTTTT
122078419 ATTTAAATTTAATTTTTTCTCATTTC
1 ATTTAAATTTAATTTTTTCTCATTTC
122078445 ATTTAAA-TTAATTTTTTCCTCATTTC
1 ATTTAAATTTAATTTTTT-CTCATTTC
* *
122078471 ATTTAAATTATCAA-TCTTTC-CA-TGC
1 ATTTAAATT-T-AATTTTTTCTCATTTC
122078496 ----AAA-TTAATTTTTTTCTCATTTC
1 ATTTAAATTTAA-TTTTTTCTCATTTC
122078518 ATTTAAA-TTAGATTTTTTCCTCATTTC
1 ATTTAAATTTA-ATTTTTT-CTCATTTC
122078545 ATTTAAATTT-ATCTTTCTT-TCA-TT-
1 ATTTAAATTTAAT-TTT-TTCTCATTTC
122078569 -TTT-AATTTAAATTTTTTTCTCATTTC
1 ATTTAAATTT-AA-TTTTTTCTCATTTC
* *
122078595 TTTTAAATTTAAATTTTTCTTCATTTC
1 ATTTAAATTTAATTTTTTC-TCATTTC
*
122078622 ATTTAAATTT-A--TCTT-TC-TTTC
1 ATTTAAATTTAATTTTTTCTCATTTC
* *
122078643 CTTGTAAATTTAAATTTTTTCTCAGTTC
1 ATT-TAAATTT-AATTTTTTCTCATTTC
*
122078671 ATTTATA-TT-ATTTTTGT-TCATTTC
1 ATTTAAATTTAATTTTT-TCTCATTTC
* *
122078695 -----AATTTATTTTTTTCTCATTTT
1 ATTTAAATTTAATTTTTTCTCATTTC
122078716 ATTTAAATT
1 ATTTAAATT
122078725 ATCTATCTTT
Statistics
Matches: 222, Mismatches: 16, Indels: 84
0.69 0.05 0.26
Matches are distributed among these distances:
18 2 0.01
19 2 0.01
20 9 0.04
21 22 0.10
22 16 0.07
23 5 0.02
24 23 0.10
25 18 0.08
26 57 0.26
27 47 0.21
28 19 0.09
29 2 0.01
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTAAATTTAATTTTTTCTCATTTC
Found at i:122078453 original size:21 final size:21
Alignment explanation
Indices: 122078335--122078724 Score: 100
Period size: 21 Copynumber: 16.8 Consensus size: 21
122078325 TTTTGTCATT
**
122078335 TCATTTCATTTCTATTTTATT-
1 TCATTTCATTTAAATTTT-TTC
*
122078356 TCATTTCATTTAGA-TTTTT-
1 TCATTTCATTTAAATTTTTTC
**
122078375 T--TTTCAATTTTATTTTTTTTC
1 TCATTTC-A-TTTAAATTTTTTC
*
122078396 TCATTTCATTTATATTATTTT-
1 TCATTTCATTTAAATT-TTTTC
* *
122078417 TTATTTAAATTT-AATTTTTTC
1 TCATTT-CATTTAAATTTTTTC
122078438 TCATTTCATTTAAATTAATTTTTTCC
1 TCATTTCATTT--A--AATTTTTT-C
122078464 TCATTTCATTTAAATTATCAATCTT-
1 TCATTTCATTTAAATT-T---T-TTC
* * *
122078489 TCCA-TGCAAATTAATTTTTTTC
1 T-CATTTC-ATTTAAATTTTTTC
122078511 TCATTTCATTTAAATTAGATTTTTTCC
1 TCATTTCATTT--A--A-ATTTTTT-C
122078538 TCATTTCATTTAAATTTATCTTTC
1 TCATTTCATTTAAA-TT-T-TTTC
*
122078562 TTTCATTTTTAATTTAAATTTTTTTC
1 --TCA--TTTCATTTAAATTT-TTTC
*
122078588 TCATTTCTTTTAAATTTAAATTTTTC
1 TCATTTCATTTAAA--T---TTTTTC
122078614 TTCATTTCATTTAAATTTATCTTTC
1 -TCATTTCATTTAAA-TT-T-TTTC
* *
122078639 TTTCCTTGTAAATTTAAATTTTTTC
1 --TCATT-T-CATTTAAATTTTTTC
*
122078664 TCAGTTCATTTATATTATTTTTGT-
1 TCATTTCATTTA-A--ATTTTT-TC
*
122078688 TCATTTCAATTT-ATTTTTTTC
1 TCATTTC-ATTTAAATTTTTTC
*
122078709 TCATTTTATTTAAATT
1 TCATTTCATTTAAATT
122078725 ATCTATCTTT
Statistics
Matches: 284, Mismatches: 30, Indels: 110
0.67 0.07 0.26
Matches are distributed among these distances:
17 4 0.01
18 1 0.00
19 7 0.02
20 21 0.07
21 59 0.21
22 29 0.10
23 14 0.05
24 20 0.07
25 30 0.11
26 48 0.17
27 34 0.12
28 17 0.06
ACGTcount: A:0.24, C:0.12, G:0.02, T:0.62
Consensus pattern (21 bp):
TCATTTCATTTAAATTTTTTC
Found at i:122078532 original size:27 final size:27
Alignment explanation
Indices: 122078419--122078630 Score: 170
Period size: 27 Copynumber: 8.3 Consensus size: 27
122078409 ATTATTTTTT
*
122078419 ATTTAAATTTAA-TTTTTTCTCATTTC
1 ATTTAAATTAAATTTTTTTCTCATTTC
*
122078445 ATTTAAATT-AATTTTTTCCTCATTTC
1 ATTTAAATTAAATTTTTTTCTCATTTC
* *
122078471 ATTTAAATTATCAA--TCTTTC-CA-TGC
1 ATTTAAATTA--AATTTTTTTCTCATTTC
122078496 ----AAATT-AATTTTTTTCTCATTTC
1 ATTTAAATTAAATTTTTTTCTCATTTC
* *
122078518 ATTTAAATTAGATTTTTTCCTCATTTC
1 ATTTAAATTAAATTTTTTTCTCATTTC
* *
122078545 ATTTAAATT-TATCTTTCTT-TCA-TT-
1 ATTTAAATTAAAT-TTTTTTCTCATTTC
*
122078569 -TTTAATTTAAATTTTTTTCTCATTTC
1 ATTTAAATTAAATTTTTTTCTCATTTC
* *
122078595 TTTTAAATTTAAATTTTTCT-TCATTTC
1 ATTTAAA-TTAAATTTTTTTCTCATTTC
122078622 ATTTAAATT
1 ATTTAAATT
122078631 TATCTTTCTT
Statistics
Matches: 149, Mismatches: 17, Indels: 40
0.72 0.08 0.19
Matches are distributed among these distances:
18 2 0.01
20 5 0.03
21 7 0.05
22 2 0.01
23 12 0.08
24 5 0.03
25 8 0.05
26 45 0.30
27 50 0.34
28 11 0.07
29 2 0.01
ACGTcount: A:0.27, C:0.13, G:0.01, T:0.58
Consensus pattern (27 bp):
ATTTAAATTAAATTTTTTTCTCATTTC
Found at i:122078580 original size:28 final size:27
Alignment explanation
Indices: 122078545--122078659 Score: 91
Period size: 28 Copynumber: 4.4 Consensus size: 27
122078535 TCCTCATTTC
122078545 ATTTAAATTTATCTTTCTTTCATTTTTA
1 ATTTAAATTTATCTTTC-TTCATTTTTA
*
122078573 ATTTAAATTT-T-TTTC-TCATTTCT-
1 ATTTAAATTTATCTTTCTTCATTTTTA
* *
122078596 -TTTAAATTTAAATTTTTCTTCA--TTTC
1 ATTTAAATTT--ATCTTTCTTCATTTTTA
* * *
122078622 ATTTAAATTTATCTTTCTTTCCTTGTAA
1 ATTTAAATTTATCTTTC-TTCATTTTTA
122078650 ATTTAAATTT
1 ATTTAAATTT
122078660 TTTCTCAGTT
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
22 9 0.13
24 7 0.10
25 9 0.13
26 11 0.16
27 13 0.19
28 21 0.30
ACGTcount: A:0.26, C:0.11, G:0.01, T:0.62
Consensus pattern (27 bp):
ATTTAAATTTATCTTTCTTCATTTTTA
Found at i:122078603 original size:77 final size:74
Alignment explanation
Indices: 122078388--122078685 Score: 337
Period size: 77 Copynumber: 4.1 Consensus size: 74
122078378 TCAATTTTAT
* *
122078388 TTTTTTTCTCATTTCATTTATA-TTA--TTT-TTT-A-TTTAAATTTAATTTTTTCTCATTTCAT
1 TTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCATTTTAAATTTAATTTTTTCTCATTTCAT
122078447 TTAAATTAA
66 TTAAATTAA
** **
122078456 TTTTTTCCTCATTTCATTTAAA-TTATCAATCTTTCCA-TGCAAA-TTAATTTTTTTCTCATTTC
1 TTTTTTCCTCATTTCATTTAAATTTATCTTTCTTT-CATTTTAAATTTAA-TTTTTTCTCATTTC
122078518 ATTTAAATTAGA
64 ATTTAAATTA-A
*
122078530 TTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCATTTTTAATTTAAATTTTTTTCTCATTTC
1 TTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCATTTTAAATTT-AA-TTTTTTCTCATTTC
*
122078595 TTTTAAATTTAA
64 ATTTAAA-TTAA
* * * * *
122078607 ATTTTTCTTCATTTCATTTAAATTTATCTTTCTTTCCTTGTAAATTTAAATTTTTTCTCAGTTCA
1 TTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCATTTTAAATTT-AATTTTTTCTCATTTCA
*
122078672 TTTATATT-A
65 TTTAAATTAA
122078681 TTTTT
1 TTTTT
122078686 GTTCATTTCA
Statistics
Matches: 197, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
68 23 0.12
70 1 0.01
71 3 0.02
72 4 0.02
73 29 0.15
74 30 0.15
75 15 0.08
76 20 0.10
77 69 0.35
78 3 0.02
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.61
Consensus pattern (74 bp):
TTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCATTTTAAATTTAATTTTTTCTCATTTCAT
TTAAATTAA
Found at i:122078719 original size:20 final size:19
Alignment explanation
Indices: 122078667--122078720 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
122078657 TTTTTTCTCA
122078667 GTTCA-TTTATATTATTTTT
1 GTTCATTTTAT-TTATTTTT
*
122078686 GTTCATTTCAATTTATTTTT
1 GTTCATTT-TATTTATTTTT
*
122078706 TTCTCATTTTATTTA
1 GT-TCATTTTATTTA
122078721 AATTATCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.17
20 16 0.55
21 8 0.28
ACGTcount: A:0.20, C:0.09, G:0.04, T:0.67
Consensus pattern (19 bp):
GTTCATTTTATTTATTTTT
Found at i:122078769 original size:93 final size:95
Alignment explanation
Indices: 122078608--122078778 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 95
122078598 TAAATTTAAA
* * *
122078608 TTTTTCTTCATTTCATTTAAATTTATCTTTCTTTCCTTGTAAATTTAAATTTTTTCTCAGTTCAT
1 TTTTTCTTCATTTCATTTAAATTTATCTATCTTTCCATGTAAATTTAAATTTTTTCTCAGTCCAT
*
122078673 TTATATTATTTTTGTTCATTTCAATTTATT
66 TTATATAATTTTTGTTCATTTCAATTTATT
* * * * *
122078703 TTTTTC-TCATTTTATTTAAA-TTATCTATCTTTCCATGTAATTTTCATTTTTTTCTCA-TACCC
1 TTTTTCTTCATTTCATTTAAATTTATCTATCTTTCCATGTAAATTTAAATTTTTTCTCAGT-CCA
*
122078765 TTTATCTAATTTTT
65 TTTATATAATTTTT
122078779 CATATATTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
92 1 0.02
93 45 0.69
94 13 0.20
95 6 0.09
ACGTcount: A:0.22, C:0.15, G:0.02, T:0.61
Consensus pattern (95 bp):
TTTTTCTTCATTTCATTTAAATTTATCTATCTTTCCATGTAAATTTAAATTTTTTCTCAGTCCAT
TTATATAATTTTTGTTCATTTCAATTTATT
Found at i:122080444 original size:41 final size:41
Alignment explanation
Indices: 122080376--122080456 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
122080366 TCGGTACGAC
* * *
122080376 ACTTTACACTTGAATAGAGCTTTCATGTACTCAATAAGGAT
1 ACTTTACACTTGAATAGAGCATGCATGTACGCAATAAGGAT
* * *
122080417 ACTTTATACTTGAATCGAGCATGCATGTCCGCAATAAGGA
1 ACTTTACACTTGAATAGAGCATGCATGTACGCAATAAGGA
122080457 CCGACACCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (41 bp):
ACTTTACACTTGAATAGAGCATGCATGTACGCAATAAGGAT
Done.