Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4819703
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 21
Found at i:1220769 original size:19 final size:19
Alignment explanation
Indices: 1220745--1220793 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1220735 AATGTAGGGT
1220745 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1220764 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1220783 TATTTTTGTAT
1 TAATTTTGTAT
1220794 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1221271 original size:190 final size:191
Alignment explanation
Indices: 1220910--1221264 Score: 562
Period size: 190 Copynumber: 1.9 Consensus size: 191
1220900 ACATATGGCC
1220910 AACAGGGTGCAACCATAAAGTGTCGATCATATATAAAAAGTGTCGATCCCAAAACATCGAAAACC
1 AACAGGGTGCAACCATAAAG-GTCGATCATATAT-AAAAGTGTCGATCCCAAAACATCG-AAACC
1220975 AAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAT
63 AAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAT
*
1221040 ATGTCTAAATAATCTGTCGACACTATTTTAGTTTTGTCGATATTTTTGTTCCAGAATGAATGGAA
128 ATGTCTAAATAATCTATCGACAC-ATTTTAGTTTTGTCGATATTTTTGTTCCAGAATGAATGGAA
*
1221105 AACAGGGTGCAACCATAAA-GTCGATCCATATAT-AAAGTGTCGATCCCAAAAACATCG-AACCC
1 AACAGGGTGCAACCATAAAGGTCGAT-CATATATAAAAGTGTCGATCCC-AAAACATCGAAACCA
1221167 AAAGTATAATGT-A-ATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG-TTTATGAGAGAA
64 AAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG-A
*
1221229 TATGTCTAAATAATGTATCGACAC-TTTTAGTTTTGT
127 TATGTCTAAATAATCTATCGACACATTTTAGTTTTGT
1221265 GTCGATACTA
Statistics
Matches: 153, Mismatches: 3, Indels: 15
0.89 0.02 0.09
Matches are distributed among these distances:
188 12 0.08
189 16 0.10
190 54 0.35
191 16 0.10
192 14 0.09
193 15 0.10
194 7 0.05
195 19 0.12
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (191 bp):
AACAGGGTGCAACCATAAAGGTCGATCATATATAAAAGTGTCGATCCCAAAACATCGAAACCAAA
AGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGATATG
TCTAAATAATCTATCGACACATTTTAGTTTTGTCGATATTTTTGTTCCAGAATGAATGGAA
Found at i:1222478 original size:160 final size:160
Alignment explanation
Indices: 1222170--1222479 Score: 595
Period size: 161 Copynumber: 1.9 Consensus size: 160
1222160 TAATACAATT
1222170 GTATATATGGTCACAAAGGGAGCAACAATTTCAACTACACTACCATATGGATGTGTCATCACCAT
1 GTATATATGGTCACAAAGGGAGCAACAATTTCAACTACACTACCATATGGATGTGTCATCACCAT
1222235 CTGTTGAAGAAGAAGGGTTGATTTTTCGCATGACGCCCCTGTTCGATTAACCCGCAAGATTGACA
66 CTGTTGAAGAAGAAGGGTTGATTTTTCGCATGACGCCCCTGTTCGATTAACCCGCAAGATTGACA
1222300 TGGTATTTATTAAAAAAAATATTAAAAATC
131 TGGTATTTATTAAAAAAAATATTAAAAATC
1222330 GTATATATGGTCACAAAGGGAGCAACAATTTCAACTACACTACCATATGGATGTGTC-TCACCAT
1 GTATATATGGTCACAAAGGGAGCAACAATTTCAACTACACTACCATATGGATGTGTCATCACCAT
1222394 CTGTTGAAGAAGAAGGAAGTTGATTTTTCGCATGACGCCCCTGTTCGATTAACCCGCAAGATTGA
66 CTGTTGAAGAAGAAGG--GTTGATTTTTCGCATGACGCCCCTGTTCGATTAACCCGCAAGATTGA
1222459 CATGGTATTTATTAAAAAAAA
129 CATGGTATTTATTAAAAAAAA
1222480 ACGGGATATG
Statistics
Matches: 148, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
159 23 0.16
160 57 0.39
161 68 0.46
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (160 bp):
GTATATATGGTCACAAAGGGAGCAACAATTTCAACTACACTACCATATGGATGTGTCATCACCAT
CTGTTGAAGAAGAAGGGTTGATTTTTCGCATGACGCCCCTGTTCGATTAACCCGCAAGATTGACA
TGGTATTTATTAAAAAAAATATTAAAAATC
Found at i:1222883 original size:12 final size:12
Alignment explanation
Indices: 1222866--1222919 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
1222856 GGTCGCAGAA
1222866 GATGAAGCTGAC
1 GATGAAGCTGAC
*
1222878 GATGAAG-AGAC
1 GATGAAGCTGAC
* *
1222889 GATGATGATGAC
1 GATGAAGCTGAC
1222901 GATGAAGCTGAC
1 GATGAAGCTGAC
1222913 GATGAAG
1 GATGAAG
1222920 ATGATGACGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
11 9 0.25
12 27 0.75
ACGTcount: A:0.37, C:0.11, G:0.35, T:0.17
Consensus pattern (12 bp):
GATGAAGCTGAC
Found at i:1222897 original size:3 final size:3
Alignment explanation
Indices: 1222889--1222957 Score: 75
Period size: 3 Copynumber: 23.0 Consensus size: 3
1222879 ATGAAGAGAC
* * * * * *
1222889 GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT GAC GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
1222937 GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT
1222958 CCAAACACGT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:1222934 original size:12 final size:12
Alignment explanation
Indices: 1222874--1222957 Score: 89
Period size: 12 Copynumber: 7.1 Consensus size: 12
1222864 AAGATGAAGC
*
1222874 TGACGATGAAGA
1 TGACGATGATGA
1222886 -GACGATGATGA
1 TGACGATGATGA
* *
1222897 TGACGATGAAGC
1 TGACGATGATGA
*
1222909 TGACGATGAAGA
1 TGACGATGATGA
* *
1222921 TGATGACGATGA
1 TGACGATGATGA
*
1222933 TGATGATGATGA
1 TGACGATGATGA
*
1222945 TGAAGATGATGA
1 TGACGATGATGA
1222957 T
1 T
1222958 CCAAACACGT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
11 10 0.16
12 52 0.84
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:1223974 original size:15 final size:15
Alignment explanation
Indices: 1223944--1223980 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1223934 TGAACATTAT
1223944 TGTGTATTATATTTG
1 TGTGTATTATATTTG
1223959 TGTGTGATTATA-TTG
1 TGTGT-ATTATATTTG
1223974 TGTGTAT
1 TGTGTAT
1223981 ATTTTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 13 0.62
16 6 0.29
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (15 bp):
TGTGTATTATATTTG
Found at i:1224154 original size:16 final size:16
Alignment explanation
Indices: 1224122--1224155 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1224112 TATCCACAAC
* *
1224122 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
1224138 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
1224154 AA
1 AA
1224156 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:1224543 original size:23 final size:23
Alignment explanation
Indices: 1224517--1224584 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
1224507 GGTAAAAATG
1224517 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
1224540 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
1224563 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGCGCTTATAT
1224585 TGTAAAGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:1227733 original size:25 final size:25
Alignment explanation
Indices: 1227699--1227758 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
1227689 ATTATCATTA
1227699 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
1227724 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
1227749 ATTTAGGTAT
1 ATTTAGGTAT
1227759 AATATTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1228595 original size:23 final size:23
Alignment explanation
Indices: 1228565--1228635 Score: 106
Period size: 23 Copynumber: 3.1 Consensus size: 23
1228555 ATAGGTAAAC
1228565 ATAATGTAATAGGTAGCGCTTAT
1 ATAATGTAATAGGTAGCGCTTAT
* *
1228588 ATAATGTAATAGGTATCGTTTAT
1 ATAATGTAATAGGTAGCGCTTAT
* *
1228611 ATAATGTAATAGGTAGTGGTTAT
1 ATAATGTAATAGGTAGCGCTTAT
1228634 AT
1 AT
1228636 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.39
Consensus pattern (23 bp):
ATAATGTAATAGGTAGCGCTTAT
Found at i:1229022 original size:21 final size:22
Alignment explanation
Indices: 1228976--1229022 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
1228966 TAATTACATA
1228976 ACTTTTAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAGTATCGATC
* *
1228998 -CTTTTATAAAAAGTATGGA-C
1 ACTTTTAAAAAAAGTATCGATC
1229018 ACTTT
1 ACTTT
1229023 CAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (22 bp):
ACTTTTAAAAAAAGTATCGATC
Found at i:1229068 original size:23 final size:23
Alignment explanation
Indices: 1229042--1229100 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1229032 AGGTAAACAT
1229042 ATGTAATAGGTAGCGCTTAGATA
1 ATGTAATAGGTAGCGCTTAGATA
* * *
1229065 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTAGATA
*
1229088 ATGTAATATGTAG
1 ATGTAATAGGTAG
1229101 TGGTTATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTAGATA
Found at i:1229107 original size:23 final size:23
Alignment explanation
Indices: 1229042--1229109 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
1229032 AGGTAAACAT
* *
1229042 ATGTAATAGGTAGCGCTTAGATA
1 ATGTAATAGGTAGTGCTTATATA
*
1229065 ATGTAATAGGTA-TCGTTTATATA
1 ATGTAATAGGTAGT-GCTTATATA
* *
1229088 ATGTAATATGTAGTGGTTATAT
1 ATGTAATAGGTAGTGCTTATAT
1229110 TGTAAAGTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 37 0.97
24 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGTGCTTATATA
Found at i:1229570 original size:21 final size:21
Alignment explanation
Indices: 1229519--1229572 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
1229509 TAAACATATG
1229519 ATGTAATAGGTAGCGCTTATA
1 ATGTAATAGGTAGCGCTTATA
* *
1229540 ATGT-ATAGGTATCGTTTATA
1 ATGTAATAGGTAGCGCTTATA
1229560 ATGTAATAGGTAG
1 ATGTAATAGGTAG
1229573 TGGTTATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (21 bp):
ATGTAATAGGTAGCGCTTATA
Found at i:1229579 original size:21 final size:21
Alignment explanation
Indices: 1229519--1229580 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
1229509 TAAACATATG
*
1229519 ATGTAATAGGTAGCGCTTATA
1 ATGTAATAGGTAGTGCTTATA
*
1229540 ATGT-ATAGGTA-TCGTTTATA
1 ATGTAATAGGTAGT-GCTTATA
*
1229560 ATGTAATAGGTAGTGGTTATA
1 ATGTAATAGGTAGTGCTTATA
1229581 TTGAAAGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 17 0.49
21 17 0.49
22 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (21 bp):
ATGTAATAGGTAGTGCTTATA
Found at i:1230032 original size:22 final size:21
Alignment explanation
Indices: 1229989--1230052 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
1229979 ACATATGATG
1229989 TAGGTAGCGCTTATAATGTAA
1 TAGGTAGCGCTTATAATGTAA
* *
1230010 TAGGTATCGTTTATATATGTAA
1 TAGGTAGCGCTTATA-ATGTAA
* * *
1230032 TAGGTAGTGGTTATATTGTAA
1 TAGGTAGCGCTTATAATGTAA
1230053 AGTGTCTATC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (21 bp):
TAGGTAGCGCTTATAATGTAA
Found at i:1230486 original size:22 final size:23
Alignment explanation
Indices: 1230456--1230518 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
1230446 ATAGGTAAAC
*
1230456 ATATGATGTAATAGGTAGCG-CT
1 ATATAATGTAATAGGTAGCGTCT
* * *
1230478 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGTCT
1230501 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1230519 TGGTTATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTCT
Found at i:1230525 original size:23 final size:23
Alignment explanation
Indices: 1230456--1230527 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
1230446 ATAGGTAAAC
* * *
1230456 ATATGATGTAATAGGTAG-CGCT
1 ATATAATGTAATAGGTAGTGGTT
* *
1230478 ATATAATGTAATAGATA-TCGTTT
1 ATATAATGTAATAGGTAGT-GGTT
1230501 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGGTT
1230524 ATAT
1 ATAT
1230528 TGTAAAGTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
22 15 0.38
23 24 0.60
24 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGGTT
Found at i:1230892 original size:944 final size:959
Alignment explanation
Indices: 1227763--1231157 Score: 5728
Period size: 944 Copynumber: 3.6 Consensus size: 959
1227753 AGGTATAATA
*
1227763 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT--TTTA
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1227826 CGGTATATATTATTATTAAATT-AAAA-AATAAACATATATATTACATATTTATTATTATCTTTG
66 CGG-ATATATTATTATTAAATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTTTG
1227889 GTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
129 GTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
1227954 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACTGTTAAAAAAAATTG
194 TTGTGTAAATGAAATTATT-AATTAATATTGTAGGTGGAAAACATGAAACTGTT-AAAAAAATTG
1228019 AAACATAAATTACATAA-TTTTAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAA
257 AAACAT-AATTACATAACTTTTAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAA
*
1228083 TATAATAGGTAAACATATGATGTA-ATAGGGCGCTTTATAATGTAAT--GTATCGTTTATATAAT
321 TATAATAGGTAAACATATGATGTAGGTA--GCGCTTTATAATGTAATAGGTATCGTTTATATAAT
*
1228145 GTAATAGGTAGTGGTTATATTGTAAAGTGTCTATTCTTTTTATAAAAGTGTCCATACTTTTTTCA
384 GTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
1228210 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTAAGATATT-A-TTAGTAATTAT
449 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAATTAT
1228273 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATATTAAATTAAAAACAAT-AA-AT
514 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATA-T-TATTAAATTAAAAACAATAAACAT
1228336 ATATATT--ATATTTATTA-TATCTTTGGTTAATGTTGTT-AATTTAAATTCTAAATATTATTTT
577 ATATATTACATATTTATTATTATCTTTGGTTAATGTTGTTAAATTTAAATTCTAAATATTATTTT
1228397 ATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATT-ATATTGTAGG-
642 ATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGT
1228460 GGAAAACATGAAACACTGTT-AAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCG
707 GGAAAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCG
1228524 ATCCTTTTTATAAAAAG--TGGACACTTTCA-A-AATAGGTAAACATA--ATGTAATAGGTAGCG
772 ATCCTTTTTATAAAAAGTATGGACACTTTCATATAATAGGTAAACATATGATGTAATAGGTAGCG
1228583 CTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCT
837 C-TATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCT
1228648 ATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
901 ATCC-TTTTATAAAAGTGTCCATA-TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
1228709 -TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT-TTTTTACGTTA
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1228772 CGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
66 CGG-ATATATTATTATTAAATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTTTG
* *
1228837 GTTAATGTTGTTAAATTTAAATTCTAAATATTA-TTTATAAAATATCAAAA-AA-AAAAT-TTTT
129 GTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
1228898 TTGTGTAAATGAAA-TATTAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAA-TG
194 TTGTGTAAATGAAATTATTAATTAATATTGTAGGTGGAAAACATG-AA-ACTGTTAAAAAAATTG
1228961 AAACATAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAA
257 AAACATAATTACATAACTTTT-AAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAA
* *
1229026 TATAATAGGTAAACATATG-TAATAGGTAGCGCTTAGATAATGTAATAGGTATCGTTTATATAAT
321 TATAATAGGTAAACATATGAT-GTAGGTAGCGCTT-TATAATGTAATAGGTATCGTTTATATAAT
* *
1229090 GTAATATGTAGTGGTTATATTGTAAAGTGTCTATTCTTTTTATAAAAGTGTCCA-ACTTTTTTCA
384 GTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
*
1229154 CTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAATTAT
449 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAATTAT
*
1229219 AGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTAAATTAAAAACAATAAAC--AT
514 AGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTAAATTAAAAACAATAAACATAT
1229282 ATATTACATATTTATTATTATCTTTGGTTAATGTTGTTAAATTTAAATTCTAAATATTA-TTTAT
579 ATATTACATATTTATTATTATCTTTGGTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTAT
1229346 AAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATT-AATTAATATTGTAGGTGG
644 AAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
1229410 AAAACATGAAACACTGTTAAAAAAATTGAAACAT-AATTACATAACTTTT-AAAAAAGTATCGAT
709 AAAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGAT
1229473 CCTTTTTA-AAAAAGTATGGACACTTTCATAT-ATAGGTAAACATATGATGTAATAGGTAGCGCT
774 CCTTTTTATAAAAAGTATGGACACTTTCATATAATAGGTAAACATATGATGTAATAGGTAGCGCT
1229536 -TATAATGT-ATAGGTATCG-TT-TATAATGTAATAGGTAGTGGTTATATTG-AAAGTGTCTATC
839 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATC
*
1229596 CTTTTTATAAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
904 C-TTTTATAAAAGTGTCCATATTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
1229653 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1229718 CGGTATATATTATTATT-AATTAAAAACAATAAAC-ATATA-TACATA-TTATTATTATCTTTGG
66 CGG-ATATATTATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGG
1229779 TTAATGTTG-TAAA-TT-AATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
130 TTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA-TTT
*
1229841 TTGTGTAAATGAAATTA-TAATTAATATTGTATGTGGAAAACATGAAACTGTTAAAAAAATTGAA
194 TTGTGTAAATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAAACTGTTAAAAAAATTGAA
1229905 ACATAATTACATAACTTTTAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA
259 ACATAATTACATAACTTTTAAAAAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATA
1229970 TAA-AGGTAAACATATGATGTAGGTAGCGC-TTATAATGTAATAGGTATCGTTTATAT-ATGTAA
323 TAATAGGTAAACATATGATGTAGGTAGCGCTTTATAATGTAATAGGTATCGTTTATATAATGTAA
1230032 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
388 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
1230097 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
453 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAATTATAGGC
*
1230162 GTCTAATGATTT-TTTTTTACGTTACGGTATATATTA-TAAATT-AAAACAATAAACATATATAT
518 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTAAATTAAAAACAATAAACATATATAT
1230224 TACATATTTATTATTATC-TTGGTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAA
583 TACATATTTATTATTATCTTTGGTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAA
1230288 TATCAAAACAATCAAATAA-TTTTT-TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAA
648 TATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAA
*
1230351 CATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCATT
713 CATGAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTT
1230416 TTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCGCTATA
778 TTTATAAAAAGTATGGACACTTTC-ATATAATAGGTAAACATATGATGTAATAGGTAGCGCTATA
*
1230481 TAATGTAATAGATATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTAT-C-T
842 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTT
*
1230544 TTATAAAAGTGTACATATTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
907 TTATAAAAGTGTCCATATTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
1230597 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA-TTATTTTTACGTTA
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1230661 CGG-TATATTATTATTAAATTAAAAACAATAAAC-ATATATTACATATTTATTATTATCTTTGGT
66 CGGATATATTATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGGT
1230724 TAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAAT-ATTTTT
131 TAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTT
1230788 GTGTAAATG-AATTATTAA-TAATA-TGTAGGTGGAAAACATGAAACACTGTT-AAAAAATTGAA
196 GTGTAAATGAAATTATTAATTAATATTGTAGGTGGAAAACATG-AA-ACTGTTAAAAAAATTGAA
1230849 ACATAAATTACATAACTTTTAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTC-A-A
259 ACAT-AATTACATAACTTTTAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAATA
1230912 TAATAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TATAAT
323 TAATAGGTAAACATATGATG---TAGGTAGCGCTT-TATAATGTAATAGGTATCGTTTATATAAT
* * *
1230975 GTAATAGGTAGAGTTTATATTGTAAATTGTCTATCCTTTTTA-AAAAGTGTCCATACTTTTTTCA
384 GTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
*
1231039 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTAT
449 CTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAATTAT
1231104 A-GCGTCTAATGATTTATTTTTTACGTTACGATATATATATTATTAAATTAAAAA
514 AGGCGTCTAATGATTTATTTTTTACGTTACG--ATATATATTATTAAATTAAAAA
1231158 TTCTAAATAT
Statistics
Matches: 2343, Mismatches: 28, Indels: 152
0.93 0.01 0.06
Matches are distributed among these distances:
936 28 0.01
937 99 0.04
938 159 0.07
939 154 0.07
940 26 0.01
941 107 0.05
942 167 0.07
943 199 0.08
944 340 0.15
945 305 0.13
946 298 0.13
947 222 0.09
948 175 0.07
949 43 0.02
950 5 0.00
951 16 0.01
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (959 bp):
TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
CGGATATATTATTATTAAATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGGT
TAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTT
GTGTAAATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAAACTGTTAAAAAAATTGAAAC
ATAATTACATAACTTTTAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAACATATGATGTAGGTAGCGCTTTATAATGTAATAGGTATCGTTTATATAATGTAATAG
GTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGA
AAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAATTATAGGCGTC
TAATGATTTATTTTTTACGTTACGATATATATTATTAAATTAAAAACAATAAACATATATATTAC
ATATTTATTATTATCTTTGGTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATAT
CAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACAT
GAAACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTT
ATAAAAAGTATGGACACTTTCATATAATAGGTAAACATATGATGTAATAGGTAGCGCTATATAAT
GTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTAT
AAAAGTGTCCATATTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
Found at i:1230908 original size:21 final size:21
Alignment explanation
Indices: 1230863--1230908 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1230853 AAATTACATA
1230863 ACTTTTAAAAAAGTATCGATC
1 ACTTTTAAAAAAGTATCGATC
*
1230884 -CTTTTATAAAAAGTATGGA-C
1 ACTTTTA-AAAAAGTATCGATC
1230904 ACTTT
1 ACTTT
1230909 CAATAATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (21 bp):
ACTTTTAAAAAAGTATCGATC
Found at i:1230974 original size:21 final size:21
Alignment explanation
Indices: 1230929--1230999 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
1230919 TAAACATATG
1230929 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCG-TT-TATA
*
1230952 ATGTAATAGGTATCGTTTATA
1 ATGTAATAGGTAGCGTTTATA
*
1230973 ATGTAATAGGTAGAGTTTATA
1 ATGTAATAGGTAGCGTTTATA
*
1230994 TTGTAA
1 ATGTAA
1231000 ATTGTCTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 28 0.64
22 2 0.05
23 14 0.32
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.39
Consensus pattern (21 bp):
ATGTAATAGGTAGCGTTTATA
Found at i:1231124 original size:470 final size:478
Alignment explanation
Indices: 1227763--1231157 Score: 5608
Period size: 471 Copynumber: 7.2 Consensus size: 478
1227753 AGGTATAATA
*
1227763 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTT--TTTA
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1227826 CGGTATATATTATTATTAAATT-AAAA-AATAAACATATATATTACATATTTATTATTATCTTTG
66 CGG--TATA-TATTATTAAATTAAAAACAATAAAC--ATATATTACATATTTATTATTATCTTTG
1227889 GTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
126 GTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
1227954 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG-AA-ACTGTTAAAAAAAAT
191 TTGTGTAAATGAAATTATT-AATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAAAT
1228017 TGAAACATAAATTACATAA-TTTTAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTC
254 TGAAACATAAATTACATAACTTTTAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTC
1228081 AATATAATAGGTAAACATATGATGTAATAGG--GCGCTT-TATAATGTAAT--GTATCGTTTATA
319 -A-ATAATAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
*
1228141 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATTCTTTTTATAAAAGTGTCCATACTTTT
382 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
1228206 TTCACTGTGGAAAACATTAATTTAAGGTTATC
447 TTCACTGTGGAAAACATTAATTTAAGGTTATC
*
1228238 TTTTGAGTGAGATTTAAGATATT-A-TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTT
* *
1228301 ACGATATATATTATATTAAATTAAAAACAATAAATATATATT--ATATTTATTA-TATCTTTGGT
65 ACGGTATATA-T-TATTAAATTAAAAACAATAAACATATATTACATATTTATTATTATCTTTGGT
1228363 TAATGTTGTT-AATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTT
128 TAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA-TTTT
1228427 TGTGTAAATGAAATTATTAAATT-ATATTGTAGG-GGAAAACATGAAACACTGTT-AAAAAATTG
192 TGTGTAAATGAAATTATT-AATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTG
1228489 AAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAG--TGGACACTTTC
256 AAACATAAATTACATAACTTTT-AAAAAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTC
1228552 AA-AATAGGTAAACATA--ATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
319 AATAATAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
1228614 ATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
384 ATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
1228679 CACTGTGGAAAACATTAATTTAAGGTTATC
449 CACTGTGGAAAACATTAATTTAAGGTTATC
1228709 -TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT-TTTTTACGTTA
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1228772 CGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
66 CGG--TATA-TATTATTAAATTAAAAACAATAAAC--ATATATTACATATTTATTATTATCTTTG
* *
1228837 GTTAATGTTGTTAAATTTAAATTCTAAATATTA-TTTATAAAATATCAAAA-AA-AAAAT-TTTT
126 GTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
1228898 TTGTGTAAATGAAA-TATTAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAA-TG
191 TTGTGTAAATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTG
1228961 AAACAT-AATTACATAACTTTTAAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCA
256 AAACATAAATTACATAACTTTT-AAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTC-
*
1229025 ATATAATAGGTAAAC--AT-ATGTAATAGGTAGCGCTTAGATAATGTAATAGGTATCGTTTATAT
319 A-ATAATAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
* *
1229087 AATGTAATATGTAGTGGTTATATTGTAAAGTGTCTATTCTTTTTATAAAAGTGTCCA-ACTTTTT
383 AATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTT
*
1229151 TCACTGTAGAAAACATTAATTTAAGGTTATC
448 TCACTGTGGAAAACATTAATTTAAGGTTATC
*
1229182 TTTTGAGTGAGATTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTT
1229247 ACGGTATATATTATTAAATTAAAAACAATAAACATATATTACATATTTATTATTATCTTTGGTTA
65 ACGGTATATATTATTAAATTAAAAACAATAAACATATATTACATATTTATTATTATCTTTGGTTA
1229312 ATGTTGTTAAATTTAAATTCTAAATATTA-TTTATAAAATATCAAAACAATCAAATAATTTTTTG
130 ATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA-TTTTTG
1229376 TGTAAATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAA
194 TGTAAATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAA
1229441 CAT-AATTACATAACTTTTAAAAAAGTATCGATCCTTTT-TAAAAAAGTATGGACACTTTC-ATA
259 CATAAATTACATAACTTTTAAAAAAGTATCGATCCTTTTAT-AAAAAGTATGGACACTTTCAATA
1229503 TATAGGTAAACATATGATGTAATAGGTAGCGC-T-TATAATGT-ATAGGTATCG-TT-TATAATG
323 -ATAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATG
1229563 TAATAGGTAGTGGTTATATTG-AAAGTGTCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTCAC
387 TAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAC
1229626 TGTGGAAAACATTAATTTAAGGTTATC
452 TGTGGAAAACATTAATTTAAGGTTATC
1229653 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1229718 CGGTATATATTATTATTAATTAAAAACAATAAACATATA-TACATA-TTATTATTATCTTTGGTT
66 CGGTATATATTATTA--AATTAAAAACAATAAACATATATTACATATTTATTATTATCTTTGGTT
1229781 AATGTTG-TAAA-TT-AATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTT
129 AATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA-TTTTT
*
1229843 GTGTAAATGAAATTA-TAATTAATATTGTATGTGGAAAACATG-AA-ACTGTTAAAAAAATTGAA
193 GTGTAAATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAA
1229905 ACAT-AATTACATAACTTTTAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAAT
258 ACATAAATTACATAACTTTTAAAAAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAAT
*
1229969 ATAAAGGTAAACATATGATG---TAGGTAGCGC-T-TATAATGTAATAGGTATCGTTTATAT-AT
322 A-ATAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAAT
1230028 GTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
386 GTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCA
1230093 CTGTGGAAAACATTAATTTAAGGTTATC
451 CTGTGGAAAACATTAATTTAAGGTTATC
*
1230121 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTTTTTTTACGTTA
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1230186 CGGTATATATTA-TAAATT-AAAACAATAAACATATATATTACATATTTATTATTATC-TTGGTT
66 CGGTATATATTATTAAATTAAAAACAATAAAC--ATATATTACATATTTATTATTATCTTTGGTT
1230248 AATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTT-
129 AATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTG
1230312 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAA
194 TGTAAATGAAATTATT-AATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAA
*
1230377 ACATAAATTACATAACTTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAA
258 ACATAAATTACATAACTTTT-AAAAAAGTATCGATC-CTTTTATAAAAAGTATGGACACTTTC-A
*
1230442 TATAATAGGTAAACATATGATGTAATAGGTAGCGC-TATATAATGTAATAGATATCGTTTATATA
320 -ATAATAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
*
1230506 ATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTAT-C--TTTATAAAAGTGTACATA-TTTTTT
384 ATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
1230567 CACTGTGGAAAACATTAATTTAAGGTTATC
449 CACTGTGGAAAACATTAATTTAAGGTTATC
1230597 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA-TTATTTTTACGTTA
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
1230661 CGGTATATTATTATTAAATTAAAAACAATAAACATATATTACATATTTATTATTATCTTTGGTTA
66 CGGTATA-TATTATTAAATTAAAAACAATAAACATATATTACATATTTATTATTATCTTTGGTTA
1230726 ATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAAT-ATTTTTGT
130 ATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTGT
1230790 GTAAATG-AATTATTAA-TAATA-TGTAGGTGGAAAACATGAAACACTGTT-AAAAAATTGAAAC
195 GTAAATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAAC
1230851 ATAAATTACATAACTTTTAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAATAAT
260 ATAAATTACATAACTTTTAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAATAAT
1230916 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TATAATGTAA
325 AGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
* * *
1230979 TAGGTAGAGTTTATATTGTAAATTGTCTATCCTTTTTA-AAAAGTGTCCATACTTTTTTCACTGT
390 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
1231043 GGAAAACATTAATTTAAGGTTATC
455 GGAAAACATTAATTTAAGGTTATC
1231067 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA-GCGTCTAATGATTTATTTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTT
*
1231131 ACGATATATATATTATTAAATTAAAAA
65 ACG--GTATATATTATTAAATTAAAAA
1231158 TTCTAAATAT
Statistics
Matches: 2783, Mismatches: 38, Indels: 201
0.92 0.01 0.07
Matches are distributed among these distances:
464 31 0.01
465 67 0.02
466 66 0.02
467 157 0.06
468 248 0.09
469 68 0.02
470 312 0.11
471 483 0.17
472 280 0.10
473 186 0.07
474 235 0.08
475 126 0.05
476 280 0.10
477 159 0.06
478 23 0.01
479 26 0.01
480 36 0.01
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (478 bp):
TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTA
CGGTATATATTATTAAATTAAAAACAATAAACATATATTACATATTTATTATTATCTTTGGTTAA
TGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTGTG
TAAATGAAATTATTAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACA
TAAATTACATAACTTTTAAAAAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAATAATA
GGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
GAAAACATTAATTTAAGGTTATC
Found at i:1231285 original size:25 final size:25
Alignment explanation
Indices: 1231257--1231307 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1231247 ACAACAAATC
*
1231257 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
1231282 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
1231307 A
1 A
1231308 TTTGGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:1231998 original size:39 final size:39
Alignment explanation
Indices: 1231955--1232041 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1231945 TCCGATGCTC
*
1231955 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
1231994 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1232033 ATCAAAATC
1 ATCAAAATC
1232042 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1232411 original size:22 final size:22
Alignment explanation
Indices: 1232367--1232412 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
1232357 ATTACATAAC
* *
1232367 TTTTAAAAAAAATATTGATACT
1 TTTTAAAAAAAATATGGACACT
* *
1232389 TTTTATAAAAAGTATGGACACT
1 TTTTAAAAAAAATATGGACACT
1232411 TT
1 TT
1232413 CAATATAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (22 bp):
TTTTAAAAAAAATATGGACACT
Found at i:1232456 original size:23 final size:23
Alignment explanation
Indices: 1232430--1232525 Score: 113
Period size: 23 Copynumber: 4.2 Consensus size: 23
1232420 ATAGGTAAAC
*
1232430 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAAGTAGCGCTT
1232453 ATATAATGTAAT-AGCTAGCGCTT
1 ATATAATGTAATAAG-TAGCGCTT
* * *
1232476 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAAGTAGCGCTT
* * *
1232499 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAAGTAGCGCTT
1232522 ATAT
1 ATAT
1232526 TGTAAAGTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
22 2 0.03
23 61 0.95
24 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAAGTAGCGCTT
Found at i:1232961 original size:23 final size:23
Alignment explanation
Indices: 1232928--1232975 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1232918 AAATAGATAA
*
1232928 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTAATACATT
* *
1232951 ATATAAGCGCTACCTAATATATT
1 ATATAAACGCTACCTAATACATT
1232974 AT
1 AT
1232976 TGTACTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAACGCTACCTAATACATT
Found at i:1253011 original size:53 final size:53
Alignment explanation
Indices: 1252954--1253162 Score: 292
Period size: 53 Copynumber: 3.9 Consensus size: 53
1252944 TCTTCTAAAA
* * * *
1252954 ACGAGTTTGCTCCCTATTGCTTCAGGGAGTAGAATTCGAATAATCTTCTGCTT
1 ACGAGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATATTCTGCTT
* * *
1253007 ACGAGTTCGCTCCCTCTTGTTTCAGGGAGTAGAACTCGAACAATATTCTACTT
1 ACGAGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATATTCTGCTT
* * * *
1253060 ACGGGTTCGCTCCTTCTTGCTTCAAGGAGTAGAACTCGAATAATATTCTGCCT
1 ACGAGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATATTCTGCTT
* * *
1253113 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAAAAATCTTCTG
1 ACGAGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATATTCTG
1253163 GTGTGATTCT
Statistics
Matches: 138, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 138 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (53 bp):
ACGAGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATATTCTGCTT
Found at i:1253759 original size:80 final size:80
Alignment explanation
Indices: 1253626--1253877 Score: 396
Period size: 80 Copynumber: 3.1 Consensus size: 80
1253616 TACTGATGGC
* * *
1253626 ACTTACTGACGTATTTGCTTCACTACTATTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
1 ACTTACTGATGAATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
1253691 TATCATGCTCGAAAG
66 TATCATGCTCGAAAG
** * *
1253706 ACTTACTGATGGGTTTGCTTCACTACTCTTCGGTGAACGCTTAAAAATTACCCGAAGGATTTAAT
1 ACTTACTGATGAATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
*
1253771 TATCATACTCGAAAG
66 TATCATGCTCGAAAG
** *
1253786 ACTTACTGATGAATTTGCTTCACTACTCTTCCGTGAAGGCTTACCAGTTACCCGAAGGATTTAAT
1 ACTTACTGATGAATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
*
1253851 CATCATGCTCGAAAG
66 TATCATGCTCGAAAG
1253866 ACTTACTGATGA
1 ACTTACTGATGA
1253878 CCCGAAGGAT
Statistics
Matches: 156, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 156 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (80 bp):
ACTTACTGATGAATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
TATCATGCTCGAAAG
Found at i:1253884 original size:42 final size:42
Alignment explanation
Indices: 1253835--1253914 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
1253825 CTTACCAGTT
* *
1253835 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
1 ACCCGAAGGATTTAAACATCAAGCTCGAAAGACTTACTGATG
1253877 ACCCGAAGGATTTAAACATCAAGCTCGAAAGACTTACT
1 ACCCGAAGGATTTAAACATCAAGCTCGAAAGACTTACT
1253915 AATGGCCAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (42 bp):
ACCCGAAGGATTTAAACATCAAGCTCGAAAGACTTACTGATG
Found at i:1266275 original size:37 final size:37
Alignment explanation
Indices: 1266203--1266395 Score: 146
Period size: 37 Copynumber: 5.1 Consensus size: 37
1266193 TGAAAATACG
* *
1266203 TATATAATATATGGTTTTTAAAACACTTTTAAAAAACTA
1 TATATAATATAT-ATTTTTAAAACA-TTTTTAAAAACTA
* *
1266242 TATATTATATATATTTTCAAAACATTTTT-AAAA--A
1 TATATAATATATATTTTTAAAACATTTTTAAAAACTA
* * *
1266276 TATATAATATGTAATTTTTGAAAAAATATTTTGAAAAC-A
1 TATATAATATAT-ATTTTT-AAAACAT-TTTTAAAAACTA
* * * *
1266315 TA-A-AACATATAATTTTTAGAGCATTTTTGAAAACTTA
1 TATATAATATAT-ATTTTTAAAACATTTTTAAAAAC-TA
*
1266352 TATATAATATATAATTTTTTAAAACATTTTTTAAAAATTA
1 TATATAATATAT-A-TTTTTAAAACA-TTTTTAAAAACTA
1266392 TATA
1 TATA
1266396 ATTTTTAAAA
Statistics
Matches: 125, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
34 11 0.09
35 15 0.12
36 14 0.11
37 23 0.18
38 16 0.13
39 22 0.18
40 15 0.12
41 9 0.07
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATAATATATATTTTTAAAACATTTTTAAAAACTA
Found at i:1266369 original size:39 final size:38
Alignment explanation
Indices: 1266203--1266397 Score: 172
Period size: 38 Copynumber: 5.2 Consensus size: 38
1266193 TGAAAATACG
** **
1266203 TATATAATATATGGTTTTTAAAACACTTTTAAAAAACTA
1 TATATAATATATAATTTTTAAAACA-TTTTTGAAAACTA
* *
1266242 TATATTATATAT-ATTTTCAAAACATTTTT-AAAA--A
1 TATATAATATATAATTTTTAAAACATTTTTGAAAACTA
* *
1266276 TATATAATATGTAATTTTTGAAAAAATATTTTGAAAAC-A
1 TATATAATATATAATTTTT-AAAACAT-TTTTGAAAACTA
* * *
1266315 TA-A-AACATATAATTTTTAGAGCATTTTTGAAAACTTA
1 TATATAATATATAATTTTTAAAACATTTTTGAAAAC-TA
* *
1266352 TATATAATATATAATTTTTTAAAACATTTTTTAAAAAT-
1 TATATAATATATAA-TTTTTAAAACATTTTTGAAAACTA
1266390 TATATAAT
1 TATATAAT
1266398 TTTTAAAAGA
Statistics
Matches: 128, Mismatches: 18, Indels: 21
0.77 0.11 0.13
Matches are distributed among these distances:
34 11 0.09
35 15 0.12
36 14 0.11
37 23 0.18
38 24 0.19
39 23 0.18
40 18 0.14
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (38 bp):
TATATAATATATAATTTTTAAAACATTTTTGAAAACTA
Found at i:1266420 original size:32 final size:31
Alignment explanation
Indices: 1266359--1266459 Score: 125
Period size: 32 Copynumber: 3.2 Consensus size: 31
1266349 TTATATATAA
*
1266359 TATATAATTTTTTAAAACATTTTTTAAAAAT
1 TATATAATTTTTAAAAACATTTTTTAAAAAT
1266390 TATATAATTTTTAAAAGAACA-TTTTTAAAAAT
1 TATATAATTTTT-AAA-AACATTTTTTAAAAAT
* *
1266422 TAT-TAGTTTTTTGAAAAACATTTTTTAAAATT
1 TATATA-ATTTTT-AAAAACATTTTTTAAAAAT
1266454 TATATA
1 TATATA
1266460 TAGTATATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
31 18 0.30
32 37 0.61
33 6 0.10
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (31 bp):
TATATAATTTTTAAAAACATTTTTTAAAAAT
Found at i:1266527 original size:13 final size:13
Alignment explanation
Indices: 1266509--1266534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1266499 ATATTATATA
1266509 GTTTTTATTTATT
1 GTTTTTATTTATT
1266522 GTTTTTATTTATT
1 GTTTTTATTTATT
1266535 ATTATTCACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
GTTTTTATTTATT
Found at i:1269279 original size:17 final size:17
Alignment explanation
Indices: 1269259--1269291 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1269249 CTCACTAACC
*
1269259 CTTTTATTTTTTGTTCT
1 CTTTTATTTTGTGTTCT
1269276 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
1269292 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:1269948 original size:19 final size:19
Alignment explanation
Indices: 1269914--1269958 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1269904 ATTTAGACAT
1269914 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
1269932 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
1269951 TTTGCATT
1 TTTGCATT
1269959 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:1273598 original size:164 final size:165
Alignment explanation
Indices: 1273356--1274005 Score: 885
Period size: 165 Copynumber: 3.9 Consensus size: 165
1273346 ACCTGCCACC
*
1273356 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGAATAGCTTAAGTCGA
*** * *
1273420 GAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACA
65 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
* *
1273485 GCATAACTCAAGGCTAGAAGGGTTATCTGTTAGC-A
130 GCATAGCTCAAGGCTAGAAGGGTTATCTGTTAACAA
*
1273520 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCAA
1 AAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGAATAGCTTAAGTCGA
* * ** *
1273584 GAAGGGCCATCTGCCAAAGACCCCCGATTTCGATTACACTCATTTTCGAGGGCACATCATTTACA
65 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
* *
1273649 GCATAGCTCAAGGCTAGAAGGGTTATCTGTGACCAA
130 GCATAGCTCAAGGCTAGAAGGGTTATCTGTTAACAA
*
1273685 AAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGAATAGCTTAAGTCGAG
**
1273750 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGTAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAG
* * * * *
1273815 CACAGCTTAAGTCTAGAAGGGTTGTCTGCTAACAA
131 CATAGCTCAAGGCTAGAAGGGTTATCTGTTAACAA
** * *
1273850 AAGACCTTTGAGTTCGACTACATTCAGCTCAACGGCACAACATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* ** * * * * * *
1273915 AAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTATATTCAACTTAGA-GGCAAATCAAGCTTAC
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATC-A-TTTAC
* *
1273979 AGAATAGCTCAAGGCAAGAAGGGTTAT
129 AGCATAGCTCAAGGCTAGAAGGGTTAT
1274006 TTGTCAATAA
Statistics
Matches: 431, Mismatches: 51, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
164 158 0.37
165 250 0.58
166 23 0.05
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (165 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAG
CATAGCTCAAGGCTAGAAGGGTTATCTGTTAACAA
Found at i:1274030 original size:329 final size:330
Alignment explanation
Indices: 1273362--1274005 Score: 900
Period size: 329 Copynumber: 1.9 Consensus size: 330
1273352 CACCAAGACC
1273362 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGC
1 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGC
** *
1273427 TATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAAC
66 TATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCACAAC
* * *
1273492 TCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCA
131 TCAAGGCTAGAAGGGTTATCTGCTAACAAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCA
* *
1273557 CATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCCATCTGCCAAAGACCCCCGATTTCGATTACA
196 CAACATTTGCAGAATAGCTTAAGTCAAGAAGGGCCATCTGCCAAAGACCCCCGAGTTCGATTACA
** * * * * *
1273622 CTCATTTTCGAGGGCACATCATTTACAGCATAGCTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
261 CTCAACTTAGAGGGCAAATCACTTACAGAATAGCTCAAGGCAAGAAGGGTTATCTGTGACCAAAA
*
1273687 GACCT
326 GACAT
*
1273692 TT-GAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
1 TTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGG
* * * ** *
1273755 CTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGTAGCACAG
65 CTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCACAA
* * * *
1273820 CTTAAGTCTAGAAGGGTTGTCTGCTAACAAAAGACCTTTGAGTTCGACTACATTCAGCT-CAACG
130 CTCAAGGCTAGAAGGGTTATCTGCTAAC-AAAGACCTTTGAGTTCGACTACACTCAGCTCCAA-G
* * * * **
1273884 GCACAACATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATT
193 GCACAACATTTGCAGAATAGCTTAAGTCAAGAAGGGCCATCTGCCAAAGACCCCCGAGTTCGATT
* *
1273949 ATATTCAACTTAGA-GGCAAATCAAGCTTACAGAATAGCTCAAGGCAAGAAGGGTTAT
258 ACACTCAACTTAGAGGGCAAATC-A-CTTACAGAATAGCTCAAGGCAAGAAGGGTTAT
1274006 TTGTCAATAA
Statistics
Matches: 275, Mismatches: 34, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
328 3 0.01
329 145 0.53
330 98 0.36
331 29 0.11
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (330 bp):
TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGC
TATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCACAAC
TCAAGGCTAGAAGGGTTATCTGCTAACAAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCA
CAACATTTGCAGAATAGCTTAAGTCAAGAAGGGCCATCTGCCAAAGACCCCCGAGTTCGATTACA
CTCAACTTAGAGGGCAAATCACTTACAGAATAGCTCAAGGCAAGAAGGGTTATCTGTGACCAAAA
GACAT
Found at i:1274635 original size:37 final size:37
Alignment explanation
Indices: 1274563--1274755 Score: 146
Period size: 37 Copynumber: 5.1 Consensus size: 37
1274553 TGAAAATACG
* *
1274563 TATATAATATATGGTTTTTAAAACACTTTTAAAAAACTA
1 TATATAATATAT-ATTTTTAAAACA-TTTTTAAAAACTA
* *
1274602 TATATTATATATATTTTCAAAACATTTTT-AAAA--A
1 TATATAATATATATTTTTAAAACATTTTTAAAAACTA
* * *
1274636 TATATAATATGTAATTTTTGAAAAAATATTTTGAAAAC-A
1 TATATAATATAT-ATTTTT-AAAACAT-TTTTAAAAACTA
* * * *
1274675 TA-A-AACATATAATTTTTAGAGCATTTTTGAAAACTTA
1 TATATAATATAT-ATTTTTAAAACATTTTTAAAAAC-TA
*
1274712 TATATAATATATAATTTTTTAAAACATTTTTTAAAAATTA
1 TATATAATATAT-A-TTTTTAAAACA-TTTTTAAAAACTA
1274752 TATA
1 TATA
1274756 ATTTTTAAAA
Statistics
Matches: 125, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
34 11 0.09
35 15 0.12
36 14 0.11
37 23 0.18
38 16 0.13
39 22 0.18
40 15 0.12
41 9 0.07
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATAATATATATTTTTAAAACATTTTTAAAAACTA
Found at i:1274729 original size:39 final size:38
Alignment explanation
Indices: 1274563--1274757 Score: 172
Period size: 38 Copynumber: 5.2 Consensus size: 38
1274553 TGAAAATACG
** **
1274563 TATATAATATATGGTTTTTAAAACACTTTTAAAAAACTA
1 TATATAATATATAATTTTTAAAACA-TTTTTGAAAACTA
* *
1274602 TATATTATATAT-ATTTTCAAAACATTTTT-AAAA--A
1 TATATAATATATAATTTTTAAAACATTTTTGAAAACTA
* *
1274636 TATATAATATGTAATTTTTGAAAAAATATTTTGAAAAC-A
1 TATATAATATATAATTTTT-AAAACAT-TTTTGAAAACTA
* * *
1274675 TA-A-AACATATAATTTTTAGAGCATTTTTGAAAACTTA
1 TATATAATATATAATTTTTAAAACATTTTTGAAAAC-TA
* *
1274712 TATATAATATATAATTTTTTAAAACATTTTTTAAAAAT-
1 TATATAATATATAA-TTTTTAAAACATTTTTGAAAACTA
1274750 TATATAAT
1 TATATAAT
1274758 TTTTAAAAGA
Statistics
Matches: 128, Mismatches: 18, Indels: 21
0.77 0.11 0.13
Matches are distributed among these distances:
34 11 0.09
35 15 0.12
36 14 0.11
37 23 0.18
38 24 0.19
39 23 0.18
40 18 0.14
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (38 bp):
TATATAATATATAATTTTTAAAACATTTTTGAAAACTA
Found at i:1274780 original size:32 final size:31
Alignment explanation
Indices: 1274719--1274819 Score: 125
Period size: 32 Copynumber: 3.2 Consensus size: 31
1274709 TTATATATAA
*
1274719 TATATAATTTTTTAAAACATTTTTTAAAAAT
1 TATATAATTTTTAAAAACATTTTTTAAAAAT
1274750 TATATAATTTTTAAAAGAACA-TTTTTAAAAAT
1 TATATAATTTTT-AAA-AACATTTTTTAAAAAT
* *
1274782 TAT-TAGTTTTTTGAAAAACATTTTTTAAAATT
1 TATATA-ATTTTT-AAAAACATTTTTTAAAAAT
1274814 TATATA
1 TATATA
1274820 TAGTATATAG
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
31 18 0.30
32 37 0.61
33 6 0.10
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (31 bp):
TATATAATTTTTAAAAACATTTTTTAAAAAT
Found at i:1274887 original size:13 final size:13
Alignment explanation
Indices: 1274869--1274894 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1274859 ATATTATATA
1274869 GTTTTTATTTATT
1 GTTTTTATTTATT
1274882 GTTTTTATTTATT
1 GTTTTTATTTATT
1274895 ATTATTCACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
GTTTTTATTTATT
Found at i:1276360 original size:14 final size:14
Alignment explanation
Indices: 1276341--1276396 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
1276331 CGTTCGTGAA
1276341 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
1276355 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
1276369 CG-T---TTATGTT
1 CGTTCGGTTATGTT
* *
1276379 TGTTCGATTATGTT
1 CGTTCGGTTATGTT
1276393 CGTT
1 CGTT
1276397 TATGTTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 8 0.22
11 1 0.03
13 1 0.03
14 26 0.72
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:1276369 original size:24 final size:24
Alignment explanation
Indices: 1276342--1276416 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
1276332 GTTCGTGAAC
* *
1276342 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
1276366 GTTCGTTTATGTTTGTTCGATTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
1276390 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCGTTCGA-TTAT
1276414 GTT
1 GTT
1276417 TAACCTAATC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 1 0.02
24 44 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGATTAT
Found at i:1277159 original size:10 final size:10
Alignment explanation
Indices: 1277144--1277234 Score: 56
Period size: 10 Copynumber: 9.7 Consensus size: 10
1277134 TGGTCTCCAA
1277144 CGTTTATGTT
1 CGTTTATGTT
1277154 CGTTTATGTT
1 CGTTTATGTT
*
1277164 CGTGTTCATTGAT
1 CGT-TT-A-TGTT
**
1277177 -GTTCGTGTT
1 CGTTTATGTT
1277186 CGTTTATGTT
1 CGTTTATGTT
1277196 CG----TGTT
1 CGTTTATGTT
1277202 CGTTTATGTT
1 CGTTTATGTT
1277212 CG----TGTT
1 CGTTTATGTT
1277218 CGTTTATGTT
1 CGTTTATGTT
*
1277228 TGTTTAT
1 CGTTTAT
1277235 TTATTAAATG
Statistics
Matches: 62, Mismatches: 7, Indels: 24
0.67 0.08 0.26
Matches are distributed among these distances:
6 12 0.19
9 3 0.05
10 38 0.61
11 3 0.05
12 3 0.05
13 3 0.05
ACGTcount: A:0.09, C:0.11, G:0.23, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:1277169 original size:16 final size:16
Alignment explanation
Indices: 1277150--1277227 Score: 138
Period size: 16 Copynumber: 4.9 Consensus size: 16
1277140 CCAACGTTTA
1277150 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
1277166 TGTTCATTGATGTTCG
1 TGTTCGTTTATGTTCG
1277182 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1277198 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1277214 TGTTCGTTTATGTT
1 TGTTCGTTTATGTT
1277228 TGTTTATTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 58 1.00
ACGTcount: A:0.08, C:0.12, G:0.24, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1277321 original size:16 final size:16
Alignment explanation
Indices: 1277300--1277332 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1277290 AAAAAAATTT
1277300 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1277316 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1277332 T
1 T
1277333 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1277793 original size:10 final size:9
Alignment explanation
Indices: 1277773--1277828 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 9
1277763 TTTTTATTTG
1277773 TTATTTATT
1 TTATTTATT
1277782 TTATTCTATT
1 TTATT-TATT
1277792 TTATTT-TAT
1 TTATTTAT-T
1277801 TT-TTTATT
1 TTATTTATT
1277809 TT-TTTATT
1 TTATTTATT
1277817 TAGTATTTATT
1 T--TATTTATT
1277828 T
1 T
1277829 AGTATTCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
8 14 0.34
9 10 0.24
10 10 0.24
11 7 0.17
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (9 bp):
TTATTTATT
Found at i:1277813 original size:15 final size:14
Alignment explanation
Indices: 1277757--1277817 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
1277747 GTTACTTTGA
1277757 TTTTTTTTTTTATT
1 TTTTTTTTTTTATT
*
1277771 TGTTATTTATTTTATT
1 T-TT-TTTTTTTTATT
* *
1277787 CTATTTTATTTTATT
1 -TTTTTTTTTTTATT
1277802 TTTTATTTTTTTATT
1 TTTT-TTTTTTTATT
1277817 T
1 T
1277818 AGTATTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 4 0.10
15 23 0.59
16 11 0.28
17 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTTTATT
Found at i:1277823 original size:15 final size:15
Alignment explanation
Indices: 1277761--1277829 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
1277751 CTTTGATTTT
1277761 TTTTTTTATTT-GTTA
1 TTTTTTTATTTAG-TA
1277776 TTTATTTTATTCTA-T-
1 TTT-TTTTATT-TAGTA
**
1277791 TTTATTTTATTTTTTA
1 TTT-TTTTATTTAGTA
1277807 TTTTTTTATTTAGTA
1 TTTTTTTATTTAGTA
*
1277822 TTTATTTA
1 TTTTTTTA
1277830 GTATTCATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.02
15 32 0.71
16 11 0.24
17 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTTTTATTTAGTA
Found at i:1277828 original size:31 final size:31
Alignment explanation
Indices: 1277759--1277816 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1277749 TACTTTGATT
*
1277759 TTTTTTTTTATTTGTTATTTATTTTATTCTA
1 TTTTATTTTATTTGTTATTTATTTTATTCTA
*
1277790 TTTTATTTTATTTTTTATTT-TTTTATT
1 TTTTATTTTATTTGTTATTTATTTTATT
1277817 TAGTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.81
Consensus pattern (31 bp):
TTTTATTTTATTTGTTATTTATTTTATTCTA
Found at i:1282572 original size:2 final size:2
Alignment explanation
Indices: 1282565--1282614 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1282555 AAAAATCTGA
1282565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1282607 AT AT AT AT
1 AT AT AT AT
1282615 TTAGAAACCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1286315 original size:30 final size:30
Alignment explanation
Indices: 1286258--1286315 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1286248 AGCTCATTAT
** *
1286258 AGGGAGACCAAAACCTTTAGGAGTCGTTGG
1 AGGGAGACCAAAACCTTTACAACTCGTTGG
1286288 AGGGAGACCAAAACCTTTACAACTCGTT
1 AGGGAGACCAAAACCTTTACAACTCGTT
1286316 AAAAGAGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (30 bp):
AGGGAGACCAAAACCTTTACAACTCGTTGG
Found at i:1299166 original size:15 final size:15
Alignment explanation
Indices: 1299146--1299211 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
1299136 CTGAAGCCAG
1299146 ACCACCGAATCCACC
1 ACCACCGAATCCACC
1299161 ACCACCGAATCCACC
1 ACCACCGAATCCACC
* * *
1299176 ACCACTTGAAGCCA-G
1 ACCAC-CGAATCCACC
* *
1299191 ACCACTGAATCCCCC
1 ACCACCGAATCCACC
1299206 ACCACC
1 ACCACC
1299212 AGAAGCCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
14 6 0.14
15 30 0.71
16 6 0.14
ACGTcount: A:0.32, C:0.50, G:0.09, T:0.09
Consensus pattern (15 bp):
ACCACCGAATCCACC
Found at i:1299180 original size:30 final size:29
Alignment explanation
Indices: 1299146--1299236 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 29
1299136 CTGAAGCCAG
*
1299146 ACCACCGAATCCACCACCACCGAATCCACC
1 ACCACCGAAGCCA-CACCACCGAATCCACC
* * * *
1299176 ACCACTTGAAGCCAGACCACTGAATCCCCC
1 ACCAC-CGAAGCCACACCACCGAATCCACC
* * *
1299206 ACCACCAGAAGCCAAACCACCAAAGCCACC
1 ACCACC-GAAGCCACACCACCGAATCCACC
1299236 A
1 A
1299237 GTAGTAGAGG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
30 42 0.88
31 6 0.12
ACGTcount: A:0.36, C:0.47, G:0.10, T:0.07
Consensus pattern (29 bp):
ACCACCGAAGCCACACCACCGAATCCACC
Found at i:1299225 original size:45 final size:45
Alignment explanation
Indices: 1299137--1299225 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
1299127 AACCACAAGC
* *
1299137 TGAAGCCAGACCACCGAATCCACCACCACCGAATCCACCACCACT
1 TGAAGCCAGACCACCGAATCCACCACCACCGAAGCCACAACCACT
* *
1299182 TGAAGCCAGACCACTGAATCCCCCACCACCAGAAGCCA-AACCAC
1 TGAAGCCAGACCACCGAATCCACCACCACC-GAAGCCACAACCAC
1299226 CAAAGCCACC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 33 0.85
46 6 0.15
ACGTcount: A:0.35, C:0.45, G:0.12, T:0.08
Consensus pattern (45 bp):
TGAAGCCAGACCACCGAATCCACCACCACCGAAGCCACAACCACT
Found at i:1302522 original size:18 final size:17
Alignment explanation
Indices: 1302468--1302516 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1302458 TTGGACTCCT
* *
1302468 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
1302486 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
1302504 AGTGCATTCGATG
1 AGTGCA-TCGATG
1302517 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:1302537 original size:64 final size:60
Alignment explanation
Indices: 1302468--1302647 Score: 184
Period size: 64 Copynumber: 2.8 Consensus size: 60
1302458 TTGGACTCCT
*
1302468 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAAT-AG
1 AGTGCATCGATGCA-T-AGAGTGCATCGATGCATGAA-TGCATTCGATGTTTGAATAAATCAG
* * *
1302529 CTTGGTGCATCGATGCATAGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATC
1 ---AGTGCATCGATGCATAGA--GTGCATCGATGCAT-GAATGCATTCGATGTTTGAA-TAAATC
1302594 AG
59 AG
*
1302596 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGCATCGATGCAT--AGAGTGCATCGATGCAT-GAATGCATTCGATGTTT
1302648 CAATTTATTC
Statistics
Matches: 100, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
62 3 0.03
63 1 0.01
64 85 0.85
65 2 0.02
66 7 0.07
67 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (60 bp):
AGTGCATCGATGCATAGAGTGCATCGATGCATGAATGCATTCGATGTTTGAATAAATCAG
Found at i:1302618 original size:19 final size:19
Alignment explanation
Indices: 1302594--1302644 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1302584 TAATTAAATC
1302594 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
1302613 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
1302632 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
1302645 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:1302682 original size:21 final size:21
Alignment explanation
Indices: 1302658--1302697 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1302648 CAATTTATTC
1302658 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
1302679 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
1302698 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:1305286 original size:21 final size:21
Alignment explanation
Indices: 1305260--1305314 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1305250 CATTCAAGGC
1305260 ATGCATCGGTGCATCATGCGA
1 ATGCATCGGTGCATCATGCGA
1305281 ATGCATCGGTGCATCATGCGA
1 ATGCATCGGTGCATCATGCGA
*
1305302 ATGCATCGATGCA
1 ATGCATCGGTGCA
1305315 CATTCAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
ATGCATCGGTGCATCATGCGA
Found at i:1305351 original size:65 final size:64
Alignment explanation
Indices: 1305238--1305359 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 64
1305228 CATGATCTTG
*
1305238 TGCATCGATGCACATTCAAGGCATGCATCGGTGCATCATGCGAATGCATCGGTGCATCATGCGAA
1 TGCATCGATGCACATTCAAGGCATGCATCGATGCAT-ATGCGAATGCATCGGTGCATCATGCGAA
* **
1305303 TGCATCGATGCACATTCAAAGGGATGCATCGATGCAT-TGTTAAGTGCATCGGTGCAT
1 TGCATCGATGCACATTC-AAGGCATGCATCGATGCATATGCGAA-TGCATCGGTGCAT
1305360 TAAGCACAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
64 4 0.08
65 30 0.59
66 17 0.33
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (64 bp):
TGCATCGATGCACATTCAAGGCATGCATCGATGCATATGCGAATGCATCGGTGCATCATGCGAA
Found at i:1308374 original size:2 final size:2
Alignment explanation
Indices: 1308367--1308461 Score: 190
Period size: 2 Copynumber: 47.5 Consensus size: 2
1308357 ATGCATCATG
1308367 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1308409 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1308451 TA TA TA TA TA T
1 TA TA TA TA TA T
1308462 CCCTATTTTA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 93 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1310935 original size:64 final size:62
Alignment explanation
Indices: 1310839--1311018 Score: 170
Period size: 64 Copynumber: 2.8 Consensus size: 62
1310829 TTGGACTCCT
* *
1310839 AGTGCATC-AGTGCACT-AAGAGTGTATCGATGCATGAAGGGCATTCGATGTTTGAA-AAAT-AG
1 AGTGCATCGA-TGCA-TGAAGAGTGCATCGATGCATGAA-TGCATTCGATGTTTGAATAAATCAG
* ** * *
1310900 CCTGGTGCATCGATGCATGAATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATC
1 ---AGTGCATCGATGCATGAAGAGTGCATCGATGCAT-GAATGCATTCGATGTTTGAA-TAAATC
1310965 AG
61 AG
* *
1310967 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGCATCGATGCATGAAGAGTGCATCGATGCAT-GAATGCATTCGATGTTT
1311019 CAATTTATTC
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
63 1 0.01
64 86 0.90
65 3 0.03
66 4 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (62 bp):
AGTGCATCGATGCATGAAGAGTGCATCGATGCATGAATGCATTCGATGTTTGAATAAATCAG
Found at i:1310989 original size:19 final size:19
Alignment explanation
Indices: 1310965--1311015 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1310955 TAATTAAATC
1310965 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
1310984 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
1311003 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
1311016 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:1311053 original size:21 final size:21
Alignment explanation
Indices: 1311029--1311068 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1311019 CAATTTATTC
*
1311029 ATTGATGCATC-GATGCATGGT
1 ATTGATACATCAG-TGCATGGT
1311050 ATTGATACATCAGTGCATG
1 ATTGATACATCAGTGCATG
1311069 CCTTTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (21 bp):
ATTGATACATCAGTGCATGGT
Found at i:1311957 original size:22 final size:22
Alignment explanation
Indices: 1311932--1311976 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1311922 AATAAAGGAG
1311932 ATAGAAAGTTTAGAATTAATTA
1 ATAGAAAGTTTAGAATTAATTA
* *
1311954 ATAGAAATTTTAGAATTGATTA
1 ATAGAAAGTTTAGAATTAATTA
1311976 A
1 A
1311977 GAGCATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (22 bp):
ATAGAAAGTTTAGAATTAATTA
Found at i:1312979 original size:21 final size:24
Alignment explanation
Indices: 1312922--1312979 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
1312912 TCGAGGGTTC
*
1312922 TATGTGGTC-CTTTGGGACAAAAT
1 TATGTGGTCACTTCGGGACAAAAT
1312945 TATGTGGTCA-TTCGGGAC-AAA-
1 TATGTGGTCACTTCGGGACAAAAT
1312966 TATGTGG-CACTTCG
1 TATGTGGTCACTTCG
1312980 ATGCAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.06
21 11 0.34
22 3 0.09
23 16 0.50
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (24 bp):
TATGTGGTCACTTCGGGACAAAAT
Found at i:1315860 original size:33 final size:35
Alignment explanation
Indices: 1315823--1315895 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
1315813 CCTTTACAAC
* *
1315823 TCCCTAG-TTTTTCTCGGGATAAACTAGAACA-TT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACATTT
* *
1315856 TCCCTAGCTTTTACACGGGCTAAGCTAGAACATTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACATTT
1315891 TCCCT
1 TCCCT
1315896 TTACAAAAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 7 0.21
34 20 0.59
35 7 0.21
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (35 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACATTT
Found at i:1316134 original size:20 final size:22
Alignment explanation
Indices: 1316109--1316148 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1316099 AGTCGTATAT
1316109 AGCCG-TTGGGGA-TGTTTTGG
1 AGCCGTTTGGGGATTGTTTTGG
1316129 AGCCGTTTGGGGATTGTTTT
1 AGCCGTTTGGGGATTGTTTT
1316149 TCTACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.10, C:0.10, G:0.40, T:0.40
Consensus pattern (22 bp):
AGCCGTTTGGGGATTGTTTTGG
Found at i:1316175 original size:18 final size:17
Alignment explanation
Indices: 1316144--1316185 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
1316134 TTTGGGGATT
1316144 GTTTTTCTACAAAAATA
1 GTTTTTCTACAAAAATA
1316161 GTTTTTCTACAAAAATA
1 GTTTTTCTACAAAAATA
1316178 GTTTTTCT
1 GTTTTTCT
1316186 GACACACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (17 bp):
GTTTTTCTACAAAAATA
Found at i:1330648 original size:16 final size:16
Alignment explanation
Indices: 1330627--1330659 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1330617 ATACTTGTGA
1330627 ATAATATTATTAAAAT
1 ATAATATTATTAAAAT
*
1330643 ATAATATTATTATAAT
1 ATAATATTATTAAAAT
1330659 A
1 A
1330660 ATATTGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATATTATTAAAAT
Found at i:1334288 original size:17 final size:17
Alignment explanation
Indices: 1334268--1334300 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1334258 TTATTTATAT
1334268 AAAATATAATATAATAG
1 AAAATATAATATAATAG
1334285 AAAATATAATATAATA
1 AAAATATAATATAATA
1334301 TTATGGTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAATATAATATAATAG
Found at i:1341069 original size:19 final size:19
Alignment explanation
Indices: 1341045--1341082 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1341035 AGATTACGAA
1341045 GGGGGTA-CAGATTCCCCCT
1 GGGGGTATC-GATTCCCCCT
1341064 GGGGGTATCGATTCCCCCT
1 GGGGGTATCGATTCCCCCT
1341083 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.24
Consensus pattern (19 bp):
GGGGGTATCGATTCCCCCT
Found at i:1342857 original size:30 final size:30
Alignment explanation
Indices: 1342811--1342882 Score: 126
Period size: 30 Copynumber: 2.3 Consensus size: 30
1342801 TCCCCCTTAC
1342811 TTTAACACTTCTTCAATTTATTATGTAAAACA
1 TTTAACAC--CTTCAATTTATTATGTAAAACA
1342843 TTTAACACCTTCAATTTATTATGTAAAACA
1 TTTAACACCTTCAATTTATTATGTAAAACA
1342873 TTTAACACCT
1 TTTAACACCT
1342883 ATTCTTCTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 32 0.80
32 8 0.20
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.42
Consensus pattern (30 bp):
TTTAACACCTTCAATTTATTATGTAAAACA
Found at i:1343143 original size:17 final size:17
Alignment explanation
Indices: 1343121--1343164 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1343111 TTCATAAATC
*
1343121 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
*
1343138 CAAAATTAAACAATCCA
1 CAAAATCAAACAATCCA
1343155 -AAATATCAAA
1 CAAA-ATCAAA
1343165 AATGTTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.59, C:0.25, G:0.00, T:0.16
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:1345104 original size:21 final size:21
Alignment explanation
Indices: 1345078--1345117 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1345068 CAGAACCCCA
*
1345078 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1345099 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1345118 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1349011 original size:22 final size:21
Alignment explanation
Indices: 1348969--1349008 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1348959 GAGTTTGTTT
*
1348969 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1348990 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1349009 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1352558 original size:19 final size:19
Alignment explanation
Indices: 1352531--1352568 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1352521 TATATTTGTG
1352531 AATAATATTACTGA-AATAT
1 AATAATATTA-TGAGAATAT
*
1352550 AATATTATTATGAGAATAT
1 AATAATATTATGAGAATAT
1352569 TGTATTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (19 bp):
AATAATATTATGAGAATAT
Found at i:1352869 original size:20 final size:21
Alignment explanation
Indices: 1352831--1352869 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1352821 TTTTTAAATA
* *
1352831 ATTTTCATAAGTATCATATTT
1 ATTTTCATAAATATAATATTT
1352852 ATTTT-ATAAATATAATAT
1 ATTTTCATAAATATAATAT
1352870 AATAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (21 bp):
ATTTTCATAAATATAATATTT
Found at i:1354010 original size:19 final size:19
Alignment explanation
Indices: 1353986--1354023 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1353976 AGATTACGCA
1353986 GGGGGTA-CAGATTCCCCCT
1 GGGGGTATC-GATTCCCCCT
1354005 GGGGGTATCGATTCCCCCT
1 GGGGGTATCGATTCCCCCT
1354024 AAAGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.24
Consensus pattern (19 bp):
GGGGGTATCGATTCCCCCT
Found at i:1361373 original size:39 final size:39
Alignment explanation
Indices: 1361319--1361410 Score: 175
Period size: 39 Copynumber: 2.4 Consensus size: 39
1361309 GGATACATAA
1361319 TATTTTTATGCTGCTTATAAATAGATTGATAGCAATCAC
1 TATTTTTATGCTGCTTATAAATAGATTGATAGCAATCAC
*
1361358 TATTTTTATGCTGCTTATAAATAGATTGATAGCAATCTC
1 TATTTTTATGCTGCTTATAAATAGATTGATAGCAATCAC
1361397 TATTTTTATGCTGC
1 TATTTTTATGCTGC
1361411 CATAGATTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (39 bp):
TATTTTTATGCTGCTTATAAATAGATTGATAGCAATCAC
Found at i:1367271 original size:24 final size:26
Alignment explanation
Indices: 1367244--1367300 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
1367234 CGATTTGATT
1367244 TATTGTTCG-TTGA-GTTTGTTAAAA
1 TATTGTTCGATTGATGTTTGTTAAAA
*
1367268 TATTGTTCGATTTATGTTTGTTAAAA
1 TATTGTTCGATTGATGTTTGTTAAAA
*
1367294 AATTGTT
1 TATTGTT
1367301 GTTCGACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 9 0.31
25 3 0.10
26 17 0.59
ACGTcount: A:0.26, C:0.04, G:0.18, T:0.53
Consensus pattern (26 bp):
TATTGTTCGATTGATGTTTGTTAAAA
Found at i:1368597 original size:39 final size:39
Alignment explanation
Indices: 1368469--1368663 Score: 132
Period size: 39 Copynumber: 5.0 Consensus size: 39
1368459 TCCAGATAGA
* * *
1368469 TTTT-CCCTATGCAAAAAAACAAATGAGCATAC-GATAAAG
1 TTTTCCCCTATGC-ACAAAGCATATGAGCATACAG-TAAAG
* * * * * * * *
1368508 TCTTACCCTACGCACAAAACA-ATGGAGCCTCCGGTAAGG
1 TTTTCCCCTATGCACAAAGCATAT-GAGCATACAGTAAAG
* *
1368547 TCTTCCACTATGCACAAAGCATATGAGCATACAGTAATA-
1 TTTTCCCCTATGCACAAAGCATATGAGCATACAGTAA-AG
* *
1368586 TTTTCCCCTATGTACAAAGCATAAGAGCATACAGTAAAG
1 TTTTCCCCTATGCACAAAGCATATGAGCATACAGTAAAG
** *
1368625 TTTTAATCC-ATGCACAAAGCA-ATGGAGCCTACAGTAAAG
1 TTTT-CCCCTATGCACAAAGCATAT-GAGCATACAGTAAAG
1368664 ACTTACCCTA
Statistics
Matches: 125, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
38 4 0.03
39 109 0.87
40 12 0.10
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (39 bp):
TTTTCCCCTATGCACAAAGCATATGAGCATACAGTAAAG
Found at i:1369751 original size:38 final size:38
Alignment explanation
Indices: 1369642--1369743 Score: 179
Period size: 38 Copynumber: 2.7 Consensus size: 38
1369632 CAGCTCGTAT
*
1369642 ATCCCGAAGGAT-TCATCTGTGTCCCGAAGGACCTGTC
1 ATCCCGAAGGATGTAATCTGTGTCCCGAAGGACCTGTC
1369679 ATCCCGAAGGATGTAATCTGTGTCCCGAAGGACCTGTC
1 ATCCCGAAGGATGTAATCTGTGTCCCGAAGGACCTGTC
*
1369717 ATCCTGAAGGATGTAATCTGTGTCCCG
1 ATCCCGAAGGATGTAATCTGTGTCCCG
1369744 TTGGACCTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
37 12 0.19
38 50 0.81
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.25
Consensus pattern (38 bp):
ATCCCGAAGGATGTAATCTGTGTCCCGAAGGACCTGTC
Found at i:1370020 original size:45 final size:44
Alignment explanation
Indices: 1369898--1370084 Score: 271
Period size: 45 Copynumber: 4.3 Consensus size: 44
1369888 ATGTGTAACC
1369898 ATGT-ATTTCATATC--ATCCATGTATCA-GTATGACATATTCAT
1 ATGTCATTTCATATCATATCCATGTATCACGTAT-ACATATTCAT
1369939 A-GTCATTTCATATCATATCCATGTATCACGTATACATATTCAT
1 ATGTCATTTCATATCATATCCATGTATCACGTATACATATTCAT
1369982 ATGTCATTTCATATCATATCACATGTATCACGTATACATATTCAT
1 ATGTCATTTCATATCATATC-CATGTATCACGTATACATATTCAT
*
1370027 ATGTCATTTCATATCATATCACATGTA-CACGTATTGCATATTCAT
1 ATGTCATTTCATATCATATC-CATGTATCACGTA-TACATATTCAT
*
1370072 AT-TAATTTCATAT
1 ATGTCATTTCATAT
1370085 AGTCACATAG
Statistics
Matches: 137, Mismatches: 2, Indels: 11
0.91 0.01 0.07
Matches are distributed among these distances:
40 2 0.01
41 11 0.08
43 23 0.17
44 38 0.28
45 63 0.46
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (44 bp):
ATGTCATTTCATATCATATCCATGTATCACGTATACATATTCAT
Found at i:1370058 original size:89 final size:85
Alignment explanation
Indices: 1369898--1370084 Score: 265
Period size: 89 Copynumber: 2.2 Consensus size: 85
1369888 ATGTGTAACC
1369898 ATGTATTTCATATCATCCATGTATCAGTATGACATATTCATAGTCATTTCATATCATATCCATGT
1 ATGTATTTCATATCATCCATGTATCAGTATGACATATTCATAGTCATTTCATATCATATCCATGT
1369963 ATCACGTA-TACATATTCAT
66 ATCACGTATTACATATTCAT
1369982 ATGTCATTTCATATCATATCACATGTATCACGTAT-ACATATTCATATGTCATTTCATATCATAT
1 ATGT-ATTTCATATC--ATC-CATGTATCA-GTATGACATATTCATA-GTCATTTCATATCATAT
*
1370046 CACATGTA-CACGTATTGCATATTCAT
60 C-CATGTATCACGTATTACATATTCAT
1370072 AT-TAATTTCATAT
1 ATGT-ATTTCATAT
1370085 AGTCACATAG
Statistics
Matches: 93, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
84 4 0.04
85 10 0.11
87 3 0.03
88 20 0.22
89 38 0.41
90 18 0.19
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (85 bp):
ATGTATTTCATATCATCCATGTATCAGTATGACATATTCATAGTCATTTCATATCATATCCATGT
ATCACGTATTACATATTCAT
Found at i:1370838 original size:33 final size:34
Alignment explanation
Indices: 1370778--1370843 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
1370768 TTTCATTAGG
*
1370778 GGGGAATCGATACACCCTAGGGGGAATCTGTTCC
1 GGGGAATCGATACACCCCAGGGGGAATCTGTTCC
1370812 GGGGAATCGATAC-CCCCAGGGGGAATCTGTTC
1 GGGGAATCGATACACCCCAGGGGGAATCTGTTC
1370844 TCCCTGCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 18 0.58
34 13 0.42
ACGTcount: A:0.23, C:0.24, G:0.33, T:0.20
Consensus pattern (34 bp):
GGGGAATCGATACACCCCAGGGGGAATCTGTTCC
Found at i:1375984 original size:21 final size:21
Alignment explanation
Indices: 1375958--1376037 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 21
1375948 CTCGTATAAA
1375958 TGTCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGATGTCATCTG
1375979 TGTCCCGAAGGA---C--CTG
1 TGTCCCGAAGGATGTCATCTG
* *
1375995 TCATCCCGAAGGATGTAATCTG
1 T-GTCCCGAAGGATGTCATCTG
1376017 TGTCCCGAAGGACCTGTCATC
1 TGTCCCGAAGGA--TGTCATC
1376038 CCGAATGATG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
16 4 0.09
17 10 0.21
18 1 0.02
21 22 0.47
22 4 0.09
23 6 0.13
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (21 bp):
TGTCCCGAAGGATGTCATCTG
Found at i:1376060 original size:21 final size:19
Alignment explanation
Indices: 1375958--1376061 Score: 58
Period size: 21 Copynumber: 5.4 Consensus size: 19
1375948 CTCGTATAAA
1375958 TGTCCCGAAGGATGTCATCTG
1 TGTCCCGAA-GATGT-ATCTG
*
1375979 TGTCCCGAAG--G-ACCTG
1 TGTCCCGAAGATGTATCTG
*
1375995 TCATCCCGAAGGATGTAATCTG
1 T-GTCCCGAA-GATGT-ATCTG
*
1376017 TGTCCCGAAG--G-ACCTG
1 TGTCCCGAAGATGTATCTG
*
1376033 TCATCCCGAATGATGTAATCTG
1 T-GTCCCGAA-GATGT-ATCTG
1376055 TGTCCCG
1 TGTCCCG
1376062 TTGGACCTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 24
0.66 0.08 0.25
Matches are distributed among these distances:
16 10 0.16
17 14 0.22
18 4 0.06
20 4 0.06
21 21 0.33
22 10 0.16
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.26
Consensus pattern (19 bp):
TGTCCCGAAGATGTATCTG
Found at i:1376069 original size:38 final size:38
Alignment explanation
Indices: 1375960--1376061 Score: 186
Period size: 38 Copynumber: 2.7 Consensus size: 38
1375950 CGTATAAATG
*
1375960 TCCCGAAGGATGTCATCTGTGTCCCGAAGGACCTGTCA
1 TCCCGAAGGATGTAATCTGTGTCCCGAAGGACCTGTCA
1375998 TCCCGAAGGATGTAATCTGTGTCCCGAAGGACCTGTCA
1 TCCCGAAGGATGTAATCTGTGTCCCGAAGGACCTGTCA
*
1376036 TCCCGAATGATGTAATCTGTGTCCCG
1 TCCCGAAGGATGTAATCTGTGTCCCG
1376062 TTGGACCTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (38 bp):
TCCCGAAGGATGTAATCTGTGTCCCGAAGGACCTGTCA
Found at i:1376285 original size:46 final size:46
Alignment explanation
Indices: 1376223--1376419 Score: 315
Period size: 46 Copynumber: 4.3 Consensus size: 46
1376213 ATGTGTAACC
**
1376223 ATGT-ATTTCATATCATATCACATGTATCACGTATGGCATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
1376268 ATGTCATTTCATATCATATCACATGTATCGCGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
1376314 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
* * *
1376360 ATGTCATTTCACATCATATCACATGTATCACGTATTGCTTATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
* *
1376406 ATATAATTTCATAT
1 ATGTCATTTCATAT
1376420 AGTTACATAG
Statistics
Matches: 141, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.03
46 137 0.97
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (46 bp):
ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
Found at i:1377978 original size:23 final size:23
Alignment explanation
Indices: 1377910--1377970 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
1377900 ACATTTTATA
*
1377910 TGGCACTTCGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
1377933 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
1377956 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
1377971 TTTATACGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1378475 original size:12 final size:13
Alignment explanation
Indices: 1378458--1378486 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1378448 CGTAGGTTAC
1378458 AGAAGCG-AGAAG
1 AGAAGCGAAGAAG
1378470 AGAAGCGAAGAAG
1 AGAAGCGAAGAAG
1378483 AGAA
1 AGAA
1378487 AAACAGGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.55, C:0.07, G:0.38, T:0.00
Consensus pattern (13 bp):
AGAAGCGAAGAAG
Found at i:1383609 original size:23 final size:23
Alignment explanation
Indices: 1383579--1383638 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
1383569 CATTTTATAT
1383579 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
1383602 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
1383625 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
1383639 TTTATATGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:1392118 original size:13 final size:13
Alignment explanation
Indices: 1392100--1392125 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1392090 TTAAATTAAA
1392100 TGCTTTTAATTTT
1 TGCTTTTAATTTT
1392113 TGCTTTTAATTTT
1 TGCTTTTAATTTT
1392126 AAATTTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
TGCTTTTAATTTT
Found at i:1393043 original size:18 final size:18
Alignment explanation
Indices: 1393020--1393060 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1393010 GAATAAAGAA
*
1393020 AGAGGTTATTAGCAAAAT
1 AGAGGTTACTAGCAAAAT
*
1393038 AGAGGTTACTAGCTAAAT
1 AGAGGTTACTAGCAAAAT
1393056 AGAGG
1 AGAGG
1393061 CATTGATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.24
Consensus pattern (18 bp):
AGAGGTTACTAGCAAAAT
Found at i:1403058 original size:23 final size:23
Alignment explanation
Indices: 1403028--1403073 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1403018 AATCAACTTG
1403028 AAATTGAACTATATTAACATTTT
1 AAATTGAACTATATTAACATTTT
1403051 AAATTGAACTATATTAACATTTT
1 AAATTGAACTATATTAACATTTT
1403074 GGTCAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
AAATTGAACTATATTAACATTTT
Found at i:1407802 original size:2 final size:2
Alignment explanation
Indices: 1407795--1407822 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1407785 TTCACATTCG
1407795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1407823 TTATCTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1417378 original size:20 final size:20
Alignment explanation
Indices: 1417353--1417443 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
1417343 TAAATTAAAT
*
1417353 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
1417373 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
1417393 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
1417405 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
1417425 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
1417444 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:1417430 original size:52 final size:52
Alignment explanation
Indices: 1417352--1417499 Score: 271
Period size: 53 Copynumber: 2.8 Consensus size: 52
1417342 CTAAATTAAA
*
1417352 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1417404 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
1417457 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATT
1417500 ATGTTGCTAA
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 8 0.09
52 35 0.37
53 51 0.54
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:1417483 original size:20 final size:20
Alignment explanation
Indices: 1417458--1417497 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1417448 TCTATTAGTT
*
1417458 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
1417478 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
1417498 TTATGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:1428590 original size:40 final size:40
Alignment explanation
Indices: 1428535--1428647 Score: 208
Period size: 41 Copynumber: 2.8 Consensus size: 40
1428525 CGTCGATAAG
1428535 GCCATTATGCAAGACAAACACCACTGAATTGGCTCCCTCT
1 GCCATTATGCAAGACAAACACCACTGAATTGGCTCCCTCT
1428575 GCCATTATGCAAGACAAACACCACTGAATTTGGCTCCCTCT
1 GCCATTATGCAAGACAAACACCACTGAA-TTGGCTCCCTCT
*
1428616 ACCATTATGCAAGACAAACACCACTGAATTGG
1 GCCATTATGCAAGACAAACACCACTGAATTGG
1428648 TATGGACCAT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
40 32 0.45
41 39 0.55
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (40 bp):
GCCATTATGCAAGACAAACACCACTGAATTGGCTCCCTCT
Found at i:1433315 original size:35 final size:35
Alignment explanation
Indices: 1433265--1433334 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
1433255 TATTGTATTG
* *
1433265 TATAGATAACTGTCTTAAAAGTAGATTTATATGAA
1 TATAAATAACTGTCTTAAAAGTAAATTTATATGAA
* *
1433300 TATAAATAATTGTCTTAAAAGTAAATTTATTTGAA
1 TATAAATAACTGTCTTAAAAGTAAATTTATATGAA
1433335 ACGATGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (35 bp):
TATAAATAACTGTCTTAAAAGTAAATTTATATGAA
Found at i:1444566 original size:36 final size:37
Alignment explanation
Indices: 1444514--1444587 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
1444504 GGGGAACAGG
1444514 CAAGGACTCGGAAGTAAATAAATTAAGCG-AAAGACA
1 CAAGGACTCGGAAGTAAATAAATTAAGCGAAAAGACA
*
1444550 CAAGGACTCGGGAGTAAATAAATTAAGCGAAAAGACA
1 CAAGGACTCGGAAGTAAATAAATTAAGCGAAAAGACA
1444587 C
1 C
1444588 TTCAAAGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 28 0.78
37 8 0.22
ACGTcount: A:0.49, C:0.15, G:0.23, T:0.14
Consensus pattern (37 bp):
CAAGGACTCGGAAGTAAATAAATTAAGCGAAAAGACA
Found at i:1447443 original size:52 final size:53
Alignment explanation
Indices: 1447364--1447471 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 53
1447354 ACCAACCGAA
* * * *
1447364 AATTGCTTTGAATCTTCAACAATTGTTGGTTGGCTACCGAATTGACTTTTAAC
1 AATTGCTTTGAATCTTCAACAATTGTTGGCTGGCCACCAAATTAACTTTTAAC
1447417 AATTG-TTTGAATCTTCAACAATTGTTGGCTGGCCACCAAATTAACTTTTAAC
1 AATTGCTTTGAATCTTCAACAATTGTTGGCTGGCCACCAAATTAACTTTTAAC
1447469 AAT
1 AAT
1447472 CTCCCACTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
52 46 0.90
53 5 0.10
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (53 bp):
AATTGCTTTGAATCTTCAACAATTGTTGGCTGGCCACCAAATTAACTTTTAAC
Found at i:1452473 original size:24 final size:24
Alignment explanation
Indices: 1452446--1452552 Score: 126
Period size: 24 Copynumber: 4.5 Consensus size: 24
1452436 AAACGGAGAT
*
1452446 ATCAGAAATCAAAACAGAAGTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
1452470 ATCAGATATCAGAAA-AGAATCCAT
1 ATCAGAAATCA-AAACAGAATTCAG
*
1452494 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* *
1452518 ATCAGAAATCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
*
1452542 ATCGGAAATCA
1 ATCAGAAATCA
1452553 GATAAAACAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
23 2 0.03
24 64 0.93
25 3 0.04
ACGTcount: A:0.52, C:0.17, G:0.13, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:1452475 original size:12 final size:11
Alignment explanation
Indices: 1452446--1452524 Score: 50
Period size: 12 Copynumber: 6.6 Consensus size: 11
1452436 AAACGGAGAT
*
1452446 ATCAGAAATCAA
1 ATCAG-AATCAG
*
1452458 AACAGAAGTCAG
1 ATCAGAA-TCAG
1452470 ATCAGATATCAG
1 ATCAGA-ATCAG
** *
1452482 AAAAGAATCCAT
1 ATCAGAAT-CAG
1452494 ATCAGAAATCAG
1 ATCAG-AATCAG
*
1452506 AACAGAATTCAG
1 ATCAGAA-TCAG
1452518 ATCAGAA
1 ATCAGAA
1452525 ATCAAAACAT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
11 6 0.12
12 41 0.80
13 4 0.08
ACGTcount: A:0.52, C:0.16, G:0.15, T:0.16
Consensus pattern (11 bp):
ATCAGAATCAG
Found at i:1452518 original size:48 final size:48
Alignment explanation
Indices: 1452444--1452554 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 48
1452434 GTAAACGGAG
* *
1452444 ATATCAGAAATCAAAACAGAAGTCAGATCAGATATCAGAAA-AGAATCC
1 ATATCAGAAATCAGAACAGAAGTCAGATCAGAAATCA-AAACAGAATCC
* * *
1452492 ATATCAGAAATCAGAACAGAATTCAGATCAGAAATCAAAACATAATTC
1 ATATCAGAAATCAGAACAGAAGTCAGATCAGAAATCAAAACAGAATCC
* *
1452540 AAATCGGAAATCAGA
1 ATATCAGAAATCAGA
1452555 TAAAACATTC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 3 0.05
48 52 0.95
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (48 bp):
ATATCAGAAATCAGAACAGAAGTCAGATCAGAAATCAAAACAGAATCC
Found at i:1455252 original size:21 final size:21
Alignment explanation
Indices: 1455228--1455267 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1455218 TTCCTCCACC
1455228 ACTTATCTA-ATATCCTTTTAT
1 ACTTATCTATATA-CCTTTTAT
1455249 ACTTATCTATATACCTTTT
1 ACTTATCTATATACCTTTT
1455268 CCTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.53
Consensus pattern (21 bp):
ACTTATCTATATACCTTTTAT
Found at i:1459055 original size:52 final size:53
Alignment explanation
Indices: 1458976--1459081 Score: 187
Period size: 52 Copynumber: 2.0 Consensus size: 53
1458966 ACCCACCGAA
*
1458976 AATTGCTTTGAATCTTCAACAATTGTTGGCTGGCCACCGAATTGACTTTTAAC
1 AATTGCTTTGAATCTTCAACAATTGTTGGCTGGCCACCGAATTAACTTTTAAC
*
1459029 AATTG-TTTGAATCTTCAACAATTGTTGGCTGGCCGCCGAATTAACTTTTAAC
1 AATTGCTTTGAATCTTCAACAATTGTTGGCTGGCCACCGAATTAACTTTTAAC
1459081 A
1 A
1459082 CAAGTATCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 46 0.90
53 5 0.10
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (53 bp):
AATTGCTTTGAATCTTCAACAATTGTTGGCTGGCCACCGAATTAACTTTTAAC
Found at i:1459094 original size:52 final size:52
Alignment explanation
Indices: 1458986--1459095 Score: 159
Period size: 52 Copynumber: 2.1 Consensus size: 52
1458976 AATTGCTTTG
* * * *
1458986 AATCTTCAACAATTGTTGGCTGGCCACCGAATTGACTTTTAACAATTGTTTG
1 AATCTTCAACAATTGTTGGCTGGCCACCGAATTAACTTTTAACAATAGTATC
*
1459038 AATCTTCAACAATTGTTGGCTGGCCGCCGAATTAACTTTTAACACA-AGTATC
1 AATCTTCAACAATTGTTGGCTGGCCACCGAATTAACTTTTAACA-ATAGTATC
1459090 AATCTT
1 AATCTT
1459096 ATATTGACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
52 51 0.98
53 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (52 bp):
AATCTTCAACAATTGTTGGCTGGCCACCGAATTAACTTTTAACAATAGTATC
Found at i:1462826 original size:18 final size:16
Alignment explanation
Indices: 1462794--1462824 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1462784 AATATTGAAA
1462794 CTTGAACTCAAAAAAG
1 CTTGAACTCAAAAAAG
1462810 CTTGAACTCAAAAAA
1 CTTGAACTCAAAAAA
1462825 AATTTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
CTTGAACTCAAAAAAG
Found at i:1463171 original size:17 final size:17
Alignment explanation
Indices: 1463137--1463169 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1463127 TTTAATTATA
1463137 ATTATATAATTATATTT
1 ATTATATAATTATATTT
*
1463154 ATTATTTAA-TATATTT
1 ATTATATAATTATATTT
1463170 TACCTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATATAATTATATTT
Found at i:1465155 original size:20 final size:17
Alignment explanation
Indices: 1465112--1465144 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1465102 CAAGTTCACA
1465112 TAATAGTAACTTTCTTT
1 TAATAGTAACTTTCTTT
1465129 TAATAGTAACTTTCTT
1 TAATAGTAACTTTCTT
1465145 CTTTAACTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (17 bp):
TAATAGTAACTTTCTTT
Found at i:1469080 original size:34 final size:34
Alignment explanation
Indices: 1469028--1469232 Score: 347
Period size: 34 Copynumber: 6.0 Consensus size: 34
1469018 ACTACTTGCA
* * *
1469028 CATTCGGTGCCTACCTTGTTGATTTTTCAATAAT
1 CATTCGGCGCCTACCTTGTTGAATTTTCAACAAT
* *
1469062 CATTTGGCTCCTACCTTGTTGAATTTTCAACAAT
1 CATTCGGCGCCTACCTTGTTGAATTTTCAACAAT
1469096 CATTCGGCGCCTACCTTGTTGAATTTTCAACAAT
1 CATTCGGCGCCTACCTTGTTGAATTTTCAACAAT
*
1469130 CATTCGGCGCCTACCTTGTTGAATTTTCAATAAT
1 CATTCGGCGCCTACCTTGTTGAATTTTCAACAAT
*
1469164 CATTCGGCGCCTACCTTGTTGAATTTTCAATAAT
1 CATTCGGCGCCTACCTTGTTGAATTTTCAACAAT
1469198 CATTCGGCGCCTACCTTGTTGAATTTTCAACAAT
1 CATTCGGCGCCTACCTTGTTGAATTTTCAACAAT
1469232 C
1 C
1469233 TCCCACTTGA
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 162 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (34 bp):
CATTCGGCGCCTACCTTGTTGAATTTTCAACAAT
Found at i:1474043 original size:23 final size:23
Alignment explanation
Indices: 1474012--1474075 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
1474002 CAACTCATAT
1474012 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCTAAGTGCCACGTAG
* ** *
1474035 AATTACACCGGAGTGCCGCGTAG
1 AATTGCACCTAAGTGCCACGTAG
1474058 AATTGCACCGTAA-TGCCA
1 AATTGCACC-TAAGTGCCA
1474076 TATAATAATG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 31 0.97
24 1 0.03
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (23 bp):
AATTGCACCTAAGTGCCACGTAG
Found at i:1474217 original size:103 final size:103
Alignment explanation
Indices: 1474091--1474411 Score: 588
Period size: 103 Copynumber: 3.1 Consensus size: 103
1474081 TAATGTCCAT
1474091 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
1474156 GACTTCACACATGTTCCAAAGAATACATATATGTCTCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
1474194 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACTA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
1474259 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1474297 AAGGACCACATATCATTCCTTAAGAATCATATGCATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1474362 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1474400 AAGAACCACATA
1 AAGGACCACATA
1474412 GACCCTCTAC
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 209 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1474926 original size:18 final size:19
Alignment explanation
Indices: 1474889--1474925 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1474879 TTTTTTTTTA
*
1474889 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGATTCCCCC
*
1474908 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
1474926 TCTAGCGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Done.