Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000686.1 Hibiscus syriacus cultivar Beakdansim tig00001340_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: 1443669
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:1021453 original size:22 final size:21
Alignment explanation
Indices: 1021383--1021453 Score: 54
Period size: 22 Copynumber: 3.3 Consensus size: 21
1021373 CCAGAACCCC
*
1021383 AGGGGGGTATCGATTCCCC-TG
1 AGGGGGGAATCGA-TCCCCTTG
* * * *
1021404 TGGGGGGAATCGGTTCCCTTCA
1 AGGGGGGAATCGATCCCCTT-G
*
1021426 AAGGGGGAATCGATCCCCCTTG
1 AGGGGGGAATCGAT-CCCCTTG
1021448 AGGGGG
1 AGGGGG
1021454 ATCGATTCCC
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
20 4 0.11
21 11 0.31
22 16 0.44
23 5 0.14
ACGTcount: A:0.17, C:0.23, G:0.39, T:0.21
Consensus pattern (21 bp):
AGGGGGGAATCGATCCCCTTG
Found at i:1028963 original size:17 final size:17
Alignment explanation
Indices: 1028941--1028975 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1028931 TTGTTGCTCG
* *
1028941 AAGAGAGTTTTTCTTAA
1 AAGAGAATTTCTCTTAA
1028958 AAGAGAATTTCTCTTAA
1 AAGAGAATTTCTCTTAA
1028975 A
1 A
1028976 GAAATGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (17 bp):
AAGAGAATTTCTCTTAA
Found at i:1036862 original size:18 final size:18
Alignment explanation
Indices: 1036839--1036894 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
1036829 CCAGGAAAAT
*
1036839 AATGAAGATTGCTCTAGC
1 AATGAAGATTTCTCTAGC
1036857 AATGAAGATTTCTCTAGC
1 AATGAAGATTTCTCTAGC
*
1036875 AATGAAGATTTCTCTTGC
1 AATGAAGATTTCTCTAGC
1036893 AA
1 AA
1036895 CCATTTCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (18 bp):
AATGAAGATTTCTCTAGC
Found at i:1037637 original size:125 final size:125
Alignment explanation
Indices: 1037428--1037838 Score: 588
Period size: 125 Copynumber: 3.2 Consensus size: 125
1037418 TTTCAATTGA
* *
1037428 AGAGTTCATAATGAGAAGAACTCATTCAACAAGTTCATACTGAGAAGAGCTTGTTTGACCTATCA
1 AGAGTTCATAATGAGAAGAACTCATTCAACAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCA
* *
1037493 CTCGATTCATGGCATTTCGAATCAGTGATGCATTGCTTGAGGGATTGACATTTTAAATGG
66 CTCGATTCATGACATTTCGAATCAGTGATGCCTTGCTTGAGGGATTGACATTTTAAATGG
*
1037553 AGAGTTCATAATGAGACGAACTCATTCAACAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCA
1 AGAGTTCATAATGAGAAGAACTCATTCAACAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCA
* *
1037618 CTCGATTCACGACATTTCGAATCAGTGATGCCTTGCTTGAGGGATTGACATTTTAAATGA
66 CTCGATTCATGACATTTCGAATCAGTGATGCCTTGCTTGAGGGATTGACATTTTAAATGG
*
1037678 AGAGTTCATAATGAGAAGAACTCATTTAACAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCA-TT--C--------AACAAGTTCATAATGAGAAGAGCTTGT
* ** ** * *
1037743 TCGACCTATCACTCGATTCATGACATTTTGAATCAGTGACACCTCACTTGAGGGATTAACATTTC
55 TCGACCTATCACTCGATTCATGACATTTCGAATCAGTGATGCCTTGCTTGAGGGATTGACATTTT
1037808 AAATGG
120 AAATGG
1037814 AGAGTTCATAATGAGAAGAACTCAT
1 AGAGTTCATAATGAGAAGAACTCAT
1037839 CTGACAGAGG
Statistics
Matches: 257, Mismatches: 18, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
125 141 0.55
126 2 0.01
128 1 0.00
135 1 0.00
136 112 0.44
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (125 bp):
AGAGTTCATAATGAGAAGAACTCATTCAACAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCA
CTCGATTCATGACATTTCGAATCAGTGATGCCTTGCTTGAGGGATTGACATTTTAAATGG
Found at i:1037827 original size:136 final size:136
Alignment explanation
Indices: 1037583--1038424 Score: 847
Period size: 139 Copynumber: 6.1 Consensus size: 136
1037573 CTCATTCAAC
* * * *
1037583 AAGTTCATAATGAGAAGAGCTTGTTCGACCTATCA-CTCGATTCA-CGACAT-T-TCGAATCAGT
1 AAGTTCATAATGAGAAGAACTTGTTCAACCT-T-AGCTCGATTCATC-ACATATGTTGAATCAGC
* ** ** * ** * * *** *
1037644 GATGCCTTGCTTGAGGGATTGACATTTTAAATGAAGAGTTCATAATGAGAAGAACTCATTTAACA
63 AACACCTCACTCGAGGGATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGA-T
*
1037709 GAGGAAGAAG
127 GAGGGAGAAG
* * * **
1037719 AAGTTCATAATGAGAAGAGCTTGTTCGACCTATCA-CTCGATTCATGACAT-T-TTGAATCAGTG
1 AAGTTCATAATGAGAAGAACTTGTTCAACCT-T-AGCTCGATTCATCACATATGTTGAATCAGCA
* * * *
1037781 ACACCTCACTTGAGGGATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCTGACAG
64 ACACCTCACTCGAGGGATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGA-TG
1037846 AGGGAGAAG
128 AGGGAGAAG
* **
1037855 AAGTTCATAATGAGAAGAGCTTGTTTGA-CTTATCGCTCGATTCATCACATATGGAGTTGAATCA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTA--GCTCGATTCATCACATAT---GTTGAATC-
* * * * * ** *
1037919 ACCCAATACCTCACTCGAGGGATAAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTGGTCT
60 A-GCAACACCTCACTCGAGGGATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCC
1037984 GATGAGGGAGAAG
124 GATGAGGGAGAAG
* *
1037997 AAGTTCATAATGAAAAGAACTTGTTCAACCTTAGCTCAATTCATCACATATGGAGTTGAATCAGC
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATAT---GTTGAATCAGC
* * *** * * *
1038062 AACACCTCACACGAGGGATCAATATTTTTTATAGAAAGTTCATAATGAGAAAAACTCATCCGATG
63 AACACCTCACTCGAGGGATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATG
1038127 AGGGAGAAG
128 AGGGAGAAG
* *
1038136 AAGTTCATAATGAGAATAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTAAATCAGC
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATAT---GTTGAATCAGC
* *** *
1038201 AACACCTCACTCGAGGGATCAAAATTTTTGATGGAGAGTTCATAATGAGAAGAAATCATCCGATG
63 AACACCTCACTCGAGGGATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATG
*
1038266 AGGGAGAAT
128 AGGGAGAAG
* * *
1038275 AAGTTCATAATAAGAAGAACTTGTTTAACCTTAGCTCGATTCATCATATATGGTGTTGAATCAGC
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATA---TGTTGAATCAGC
* *
1038340 AACACCTCACTCGAGGGATCAACATTTTC-GATGGAGAGTTCATAATGAGAAGAAATCATCCGAT
63 AACACCTCACTCGAGGGATCAACA-TTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAT
1038404 GAGGGAGAAG
127 GAGGGAGAAG
1038414 AAGTTCATAAT
1 AAGTTCATAAT
1038425 ACTTATTCAA
Statistics
Matches: 625, Mismatches: 65, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
133 1 0.00
134 1 0.00
135 2 0.00
136 164 0.26
137 1 0.00
139 322 0.52
140 4 0.01
141 35 0.06
142 36 0.06
143 59 0.09
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (136 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGTTGAATCAGCAAC
ACCTCACTCGAGGGATCAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGG
GAGAAG
Found at i:1038107 original size:139 final size:139
Alignment explanation
Indices: 1037678--1038424 Score: 936
Period size: 139 Copynumber: 5.4 Consensus size: 139
1037668 TTTTAAATGA
*** * * *
1037678 AGAGTTCATAATGAGAAGAACTCATTTAACAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGA-TGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
* * ** * *
1037743 TCGACCTATCA-CTCGATTCATGACAT-T----TTGAATCAGTGACACCTCACTTGAGGGATTAA
65 TCAACCT-T-AGCTCGATTCATCACATATGGAGTTGAATCAGCAACACCTCACTCGAGGGATCAA
*
1037802 CA-TTTCAAATGG
128 CATTTTC-GATGG
* * *
1037814 AGAGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGA-TGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
** * * *
1037879 TTGA-CTTATCGCTCGATTCATCACATATGGAGTTGAATCAACCCAATACCTCACTCGAGGGATA
65 TCAACCTTA--GCTCGATTCATCACATATGGAGTTGAATC-A-GCAACACCTCACTCGAGGGATC
*
1037943 AACA-TTTCCAGTGG
126 AACATTTTCGA-TGG
** * *
1037957 AGAGTTCATAATGAGAAGAACTGGTCTGATGAGGGAGAAGAAGTTCATAATGAAAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
1038022 CAACCTTAGCTCAATTCATCACATATGGAGTTGAATCAGCAACACCTCACACGAGGGATCAATAT
66 CAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAGCAACACCTCACTCGAGGGATCAACAT
** *
1038087 TTTTTATAG
131 TTTCGATGG
* * *
1038096 AAAGTTCATAATGAGAAAAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAATAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
1038161 CAACCTTAGCTCGATTCATCACATATGGAGTTAAATCAGCAACACCTCACTCGAGGGATCAAAAT
66 CAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAGCAACACCTCACTCGAGGGATCAACAT
*
1038226 TTTTGATGG
131 TTTCGATGG
* * *
1038235 AGAGTTCATAATGAGAAGAAATCATCCGATGAGGGAGAATAAGTTCATAATAAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
1038300 TAACCTTAGCTCGATTCATCATATATGGTGTTGAATCAGCAACACCTCACTCGAGGGATCAACAT
66 CAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAGCAACACCTCACTCGAGGGATCAACAT
1038365 TTTCGATGG
131 TTTCGATGG
*
1038374 AGAGTTCATAATGAGAAGAAATCATCCGATGAGGGAGAAGAAGTTCATAAT
1 AGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAAT
1038425 ACTTATTCAA
Statistics
Matches: 544, Mismatches: 54, Indels: 23
0.88 0.09 0.04
Matches are distributed among these distances:
133 1 0.00
134 1 0.00
135 2 0.00
136 79 0.15
137 1 0.00
139 326 0.60
140 5 0.01
141 35 0.06
142 36 0.07
143 58 0.11
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (139 bp):
AGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAGCAACACCTCACTCGAGGGATCAACAT
TTTCGATGG
Found at i:1039927 original size:11 final size:10
Alignment explanation
Indices: 1039911--1039975 Score: 62
Period size: 11 Copynumber: 6.2 Consensus size: 10
1039901 AATTATGTCC
1039911 TTATTTTATGT
1 TTATTTTAT-T
1039922 TTATTTTATT
1 TTATTTTATT
1039932 TTATTTTCATT
1 TTATTTT-ATT
*
1039943 TTATGTTT-TA
1 TTAT-TTTATT
1039953 TTATTTTATT
1 TTATTTTATT
1039963 ATT-TTGTTATT
1 -TTATT-TTATT
1039974 TT
1 TT
1039976 TAATTCGGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
9 3 0.06
10 18 0.38
11 23 0.49
12 3 0.06
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (10 bp):
TTATTTTATT
Found at i:1039930 original size:16 final size:15
Alignment explanation
Indices: 1039911--1039975 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 15
1039901 AATTATGTCC
1039911 TTATTTTATGTTTATT
1 TTATTTTAT-TTTATT
1039927 TTATTTTATTTTCATT
1 TTATTTTATTTT-ATT
*
1039943 TTATGTTT-TATTATT
1 TTAT-TTTATTTTATT
1039958 TTATTATT-TTGTTATT
1 TTATT-TTATT-TTATT
1039974 TT
1 TT
1039976 TAATTCGGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.02
15 13 0.30
16 26 0.60
17 3 0.07
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (15 bp):
TTATTTTATTTTATT
Found at i:1039943 original size:6 final size:5
Alignment explanation
Indices: 1039911--1039975 Score: 62
Period size: 5 Copynumber: 12.4 Consensus size: 5
1039901 AATTATGTCC
*
1039911 TTATT TTATGT TTATT TTATT TTATT TTCATT TTATGT TT-TA TTATT
1 TTATT TTAT-T TTATT TTATT TTATT TT-ATT TTAT-T TTATT TTATT
1039958 TTATT ATT-TT GTTATT TT
1 TTATT -TTATT -TTATT TT
1039976 TAATTCGGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
4 2 0.04
5 32 0.63
6 17 0.33
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:1039961 original size:8 final size:8
Alignment explanation
Indices: 1039922--1039975 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
1039912 TATTTTATGT
1039922 TTATTTTA
1 TTATTTTA
1039930 TT-TTATT-
1 TTATT-TTA
1039937 TTCATTTTA
1 TT-ATTTTA
*
1039946 -TGTTTTA
1 TTATTTTA
1039953 TTATTTTA
1 TTATTTTA
*
1039961 TTATTTTG
1 TTATTTTA
1039969 TTATTTT
1 TTATTTT
1039976 TAATTCGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
7 9 0.24
8 27 0.71
9 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.76
Consensus pattern (8 bp):
TTATTTTA
Found at i:1041849 original size:2 final size:2
Alignment explanation
Indices: 1041842--1041899 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
1041832 TGAGTCAAAG
1041842 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
1041884 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
1041900 AAGTACTAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1050520 original size:2 final size:2
Alignment explanation
Indices: 1050513--1050554 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1050503 TTATAGTTAA
1050513 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1050554 A
1 A
1050555 AATTATAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1051332 original size:16 final size:17
Alignment explanation
Indices: 1051301--1051333 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1051291 ATATAATGTA
1051301 TGAATCATTATATTTTT
1 TGAATCATTATATTTTT
*
1051318 TGAAT-ATTTTATTTTT
1 TGAATCATTATATTTTT
1051334 AATAATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (17 bp):
TGAATCATTATATTTTT
Found at i:1051855 original size:23 final size:21
Alignment explanation
Indices: 1051829--1051875 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
1051819 GTGTCACCAA
1051829 TAACACATATCATGATCATGTGT
1 TAACACATATCA-GATCATG-GT
* *
1051852 TAACACATGTCAGATCCTGGT
1 TAACACATATCAGATCATGGT
1051873 TAA
1 TAA
1051876 ATGATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (21 bp):
TAACACATATCAGATCATGGT
Found at i:1052006 original size:130 final size:130
Alignment explanation
Indices: 1051802--1052046 Score: 427
Period size: 130 Copynumber: 1.9 Consensus size: 130
1051792 AATTTTCTTC
*
1051802 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
1051867 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTAATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTAATAGCATATATAAA
* * *
1051932 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
1051997 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATT
1052047 GATTATATAA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTAATAGCATATATAAA
Found at i:1052496 original size:35 final size:35
Alignment explanation
Indices: 1052446--1052521 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
1052436 AATTGAATTT
*
1052446 AATTGAATTCTTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTCTTTTGGAAATTAGGGTTTAGAATGA
*
1052481 AATTGAATTAC-TTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATT-CTTTTGGAAATTAGGGTTTAGAATGA
1052516 AATTGA
1 AATTGA
1052522 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 37 0.97
36 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTCTTTTGGAAATTAGGGTTTAGAATGA
Found at i:1057118 original size:21 final size:21
Alignment explanation
Indices: 1057092--1057147 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1057082 AAAAATTAAT
*
1057092 AAGGGTACCAATACCCCAAGG
1 AAGGGTATCAATACCCCAAGG
1057113 AAGGGTATCAATACCCCAAGG
1 AAGGGTATCAATACCCCAAGG
1057134 AAGGGTATCAATAC
1 AAGGGTATCAATAC
1057148 TATTATACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.14
Consensus pattern (21 bp):
AAGGGTATCAATACCCCAAGG
Found at i:1065144 original size:30 final size:30
Alignment explanation
Indices: 1065088--1065144 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1065078 CCTATAATAC
*
1065088 GTGTTAGAATTTGTTATCATACTTTTACAT
1 GTGTTAGAATTTGTTATCAAACTTTTACAT
*
1065118 GTGTTAGAATTTGTTATCAAATTTTTA
1 GTGTTAGAATTTGTTATCAAACTTTTA
1065145 TAATATCTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (30 bp):
GTGTTAGAATTTGTTATCAAACTTTTACAT
Found at i:1073613 original size:9 final size:9
Alignment explanation
Indices: 1073599--1073640 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
1073589 CATAATTATT
1073599 AAAAATTAG
1 AAAAATTAG
1073608 AAAAATATAG
1 AAAAAT-TAG
*
1073618 AAAATTTAG
1 AAAAATTAG
*
1073627 ATAAATTA-
1 AAAAATTAG
1073635 AAAAAT
1 AAAAAT
1073641 AATTTAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 5 0.18
9 15 0.54
10 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (9 bp):
AAAAATTAG
Found at i:1083786 original size:29 final size:30
Alignment explanation
Indices: 1083729--1083786 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
1083719 ATTTTAAATT
* *
1083729 TTTAGTCCTTAAACTTTTACAACTTTACAC
1 TTTAGTCCTTAAACTTTTAAAAATTTACAC
1083759 TTTAGT-CTCTAAAC-TTTAAAAATTTACA
1 TTTAGTCCT-TAAACTTTTAAAAATTTACA
1083787 TTCCAGTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.43
Consensus pattern (30 bp):
TTTAGTCCTTAAACTTTTAAAAATTTACAC
Found at i:1084893 original size:33 final size:31
Alignment explanation
Indices: 1084841--1084901 Score: 86
Period size: 33 Copynumber: 1.9 Consensus size: 31
1084831 CTTAAAATTA
* *
1084841 ATACTAAATCATTAAACTATTATCAAAGGTG
1 ATACTAAATCATGAAACTATTAACAAAGGTG
1084872 ATACTAATATTCATGAAACTATTAACAAAG
1 ATACTAA-A-TCATGAAACTATTAACAAAG
1084902 TTGGTGACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 7 0.27
32 1 0.04
33 18 0.69
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (31 bp):
ATACTAAATCATGAAACTATTAACAAAGGTG
Found at i:1085208 original size:32 final size:32
Alignment explanation
Indices: 1085172--1085233 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
1085162 TTTGGATTGA
* *
1085172 GTTAAAATTTGGTTTGGGTTTCTTTCGGTTAG
1 GTTAAAATTCGGTTTGGGTTGCTTTCGGTTAG
1085204 GTTAAAATTCGGTTTGGGTTGCTTTCGGTT
1 GTTAAAATTCGGTTTGGGTTGCTTTCGGTT
1085234 CGGGTTAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.15, C:0.08, G:0.29, T:0.48
Consensus pattern (32 bp):
GTTAAAATTCGGTTTGGGTTGCTTTCGGTTAG
Found at i:1085351 original size:27 final size:27
Alignment explanation
Indices: 1085311--1085362 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
1085301 TTTGCTAAAT
*
1085311 TTTGGATCGGGTATAGATCGAGTATGG
1 TTTGGATCGAGTATAGATCGAGTATGG
* * *
1085338 TTTGGGTCGAGTATAGGTCGGGTAT
1 TTTGGATCGAGTATAGATCGAGTAT
1085363 CTGATCAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.08, G:0.38, T:0.35
Consensus pattern (27 bp):
TTTGGATCGAGTATAGATCGAGTATGG
Found at i:1096532 original size:53 final size:55
Alignment explanation
Indices: 1096347--1097287 Score: 1172
Period size: 55 Copynumber: 17.4 Consensus size: 55
1096337 GCAAAAGAAC
* *
1096347 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGA-TCATTGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA-TGAAG
* *
1096402 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGACAGACGCGATCG-TCGAGG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGG-CAGACGCGATTGAT-GAAG
*
1096458 ATTGTTCGAGTCTTATA--CTCTGAAGAAATAGGGGGCAAACGCGATTGATGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
* * *
1096511 ATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGTCAGACCCGATTGATGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
* *
1096564 ATTG--GGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
* * *
1096617 TTTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CGA-TCATTGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA-TGAAG
* * *
1096669 ATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACTCGATTGTTGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
1096724 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
* * * *
1096779 ATTG-T-GGGTCTTATACTCTCTAAAGAAATAGGGGGGCAGACACGATTGTTGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATA-GGGGGCAGACGCGATTGATGAAG
* * * * * *
1096833 ATTTTTTGGGTCTTATACTCTCTGAAGAAATAGGGGG-AGACACGATCGTTGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
* *
1096887 ATTGTT-GAGTCTTATACTCTCTGAAGAAATAGGGGG-AGACGCGATCGTTGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
*
1096940 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
*
1096995 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGACGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
* * ** * * *
1097050 ATTG-T-GGGTCTCATACTCTCTGAAGAAATAGGGAACATACACGATTGTTGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
* * * *
1097103 ATTGTTCGAGTCTTATACTTTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
** * * *
1097158 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAACAGACACGATTGTTGATG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
* * * * *
1097213 ATTGTTCAAGT-TCTATACT-TCTTGAAGGAAGAGGGAGC-GAACCCGATTGATGAAG
1 ATTGTTCGAGTCT-TATACTCTC-TGAAGAAATAGGGGGCAG-ACGCGATTGATGAAG
*
1097268 ATTGTCCGAGT-TCTATACTC
1 ATTGTTCGAGTCT-TATACTC
1097288 CCTAAAGAGG
Statistics
Matches: 801, Mismatches: 61, Indels: 47
0.88 0.07 0.05
Matches are distributed among these distances:
51 11 0.01
52 12 0.01
53 257 0.32
54 134 0.17
55 334 0.42
56 53 0.07
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (55 bp):
ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAG
Found at i:1096943 original size:271 final size:272
Alignment explanation
Indices: 1096347--1097287 Score: 1341
Period size: 271 Copynumber: 3.5 Consensus size: 272
1096337 GCAAAAGAAC
* *
1096347 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATCATTGAAGATTGTTCGAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCATTGAAGATTGTTCAAG
* * *
1096412 TCTTATACTCTCTGAAGAAATAGGGGGACAGACGCGATCGTCGAGGATTGTTCGAGTCTTATA--
66 TCTTATACTCTCTGAAGAAATAGGGGG-CAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACT
*
1096475 CTCTGAAGAAATAGGGGGCAAACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAAT
130 CTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAAT
* * * **
1096540 AGGGGTCAGACCCGATTGATGAAGA--TTGGGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
195 AGGGGACAGACACGATTGTTGAAGATTTTTCGGGTCTTATACTCTCTGAAGAAATAGGGGG-AGA
* *
1096603 CGCGATTGATGAAG
259 CACGATTGTTGAAG
* *
1096617 TTTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC-CGATCATTGAAGATTGTTCAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCATTGAAGATTGTTCAAG
*
1096679 TCTTATACTCTCTGAAGAAATAGGGGGCAGACTCGATTGTTGAAGATTGTTCGAGTCTTATACTC
66 TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTC
*
1096744 TCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTAAAGAAATA
131 TCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAATA
* *
1096809 GGGGGGCAGACACGATTGTTGAAGATTTTTTGGGTCTTATACTCTCTGAAGAAATAGGGGGAGAC
196 -GGGGACAGACACGATTGTTGAAGATTTTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAGAC
*
1096874 ACGATCGTTGAAG
260 ACGATTGTTGAAG
* *
1096887 ATTGTT-GAGTCTTATACTCTCTGAAGAAATAGGGGG-AGACGCGATCGTTGAAGATTGTTCGAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCATTGAAGATTGTTCAAG
1096950 TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTC
66 TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTC
* *
1097015 TCTGAAGAAATAGGGGGCAGACGCGATTGACGAAGATTGTGGGTCTCATACTCTCTGAAGAAATA
131 TCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAATA
* * * * * *
1097080 GGGAACATACACGATTGTTGAAGATTGTTCGAGTCTTATACTTTCTGAAGAAATAGGGAGCAGAC
196 GGGGACAGACACGATTGTTGAAGATTTTTCGGGTCTTATACTCTCTGAAGAAATAGGG-GGAGAC
1097145 ACGATTGTTGAAG
260 ACGATTGTTGAAG
** * ** *
1097158 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAACAGACACGATTGTTGATGATTGTTCAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCATTGAAGATTGTTCAAG
* * * * * *
1097223 T-TCTATACT-TCTTGAAGGAAGAGGGAGC-GAACCCGATTGATGAAGATTGTCCGAGT-TCTAT
66 TCT-TATACTCTC-TGAAGAAATAGGGGGCAG-ACGCGATTGTTGAAGATTGTTCGAGTCT-TAT
1097284 ACTC
127 ACTC
1097288 CCTAAAGAGG
Statistics
Matches: 610, Mismatches: 47, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
266 31 0.05
267 48 0.08
268 97 0.16
269 22 0.04
270 75 0.12
271 231 0.38
272 33 0.05
273 73 0.12
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (272 bp):
ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCATTGAAGATTGTTCAAG
TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTC
TCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAATA
GGGGACAGACACGATTGTTGAAGATTTTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGAGACA
CGATTGTTGAAG
Found at i:1097323 original size:163 final size:164
Alignment explanation
Indices: 1096347--1097333 Score: 1143
Period size: 162 Copynumber: 6.1 Consensus size: 164
1096337 GCAAAAGAAC
** **
1096347 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATCATTGAAGATTGTTCGAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGTT-GAG
* * *
1096412 TCTTATACTCTCTGAAGAAATAGGGGGACAGACGCGATCG-TCGAGGATTGTTCGAGTCTTATA-
65 TCTTATACTCTCTGAAGAAATAGGGAG-CAGACGCGATTGAT-GAAGATTGTTCGAGTCTTATAC
* * * * *
1096475 -CTCTGAAGAAATAGGGGGCAAACGCGATTGATGAAG
128 TCTCTAAAGAAATAGGGAGCAGACACGATTGTTGAAG
* * * * * *
1096511 ATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGTCAGACCCGATTGATGAAGATTG-GGGGT
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGTTGAGT
* * *
1096573 CTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGTTTG-T-GGGTCTTATACTCT
66 CTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTGTTCGAGTCTTATACTCT
* * **
1096636 CTGAAGAAATAGGGGGCAGAC-CGATCATTGAAG
131 CTAAAGAAATAGGGAGCAGACACGATTGTTGAAG
* *
1096669 ATTGTTCAAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACTCGATTGTTGAAGATTGTTCGAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGTT-GAG
* *
1096734 TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-GGGTCTTATACTC
65 TCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTGTTCGAGTCTTATACTC
*
1096797 TCTAAAGAAATAGGGGGGCAGACACGATTGTTGAAG
130 TCTAAAGAAATA-GGGAGCAGACACGATTGTTGAAG
* * * *
1096833 ATTTTTTGGGTCTTATACTCTCTGAAGAAATAGGGGG-AGACACGATCGTTGAAGATTGTTGAGT
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGTTGAGT
* * *
1096897 CTTATACTCTCTGAAGAAATAGGG-GGAGACGCGATCGTTGAAGATTGTTCGAGTCTTATACTCT
66 CTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTGTTCGAGTCTTATACTCT
* * *
1096961 CTGAAGAAATAGGGGGCAGACGCGATTGTTGAAG
131 CTAAAGAAATAGGGAGCAGACACGATTGTTGAAG
* ** *
1096995 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGACGAAGATTG-TGGGT
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGTTGAGT
* * * * * *
1097059 CTCATACTCTCTGAAGAAATAGGGAACATACACGATTGTTGAAGATTGTTCGAGTCTTATACTTT
66 CTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTGTTCGAGTCTTATACTCT
*
1097124 CTGAAGAAATAGGGAGCAGACACGATTGTTGAAG
131 CTAAAGAAATAGGGAGCAGACACGATTGTTGAAG
** * *
1097158 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAACAGACACGATTGTTGATGATTGTTCAAG
1 ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGTT-GAG
* * * *
1097223 T-TCTATACT-TCTTGAAGGAAGAGGGAGC-GAACCCGATTGATGAAGATTGTCCGAGT-TCTAT
65 TCT-TATACTCTC-TGAAGAAATAGGGAGCAG-ACGCGATTGATGAAGATTGTTCGAGTCT-TAT
* ** * *
1097284 ACTCCCTAAAG-AGGAGGGAGCGGAC-CG-TTTTTCGAAG
126 ACTCTCTAAAGAAATAGGGAGCAGACACGATTGTT-GAAG
*
1097321 ATTTTTCGAGTCT
1 ATTGTTCGAGTCT
1097334 CACTCACCCT
Statistics
Matches: 722, Mismatches: 81, Indels: 41
0.86 0.10 0.05
Matches are distributed among these distances:
157 9 0.01
158 14 0.02
159 40 0.06
160 77 0.11
161 20 0.03
162 236 0.33
163 209 0.29
164 63 0.09
165 54 0.07
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (164 bp):
ATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGTTGAGT
CTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGATGAAGATTGTTCGAGTCTTATACTCT
CTAAAGAAATAGGGAGCAGACACGATTGTTGAAG
Found at i:1102287 original size:31 final size:31
Alignment explanation
Indices: 1102224--1102289 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
1102214 CAAAGAATAC
*
1102224 TTTAGGTACCTCTTTTAACCAAAAAAATATT
1 TTTAGGTACCTATTTTAACCAAAAAAATATT
* *
1102255 TTTA-GTACCTATTTTGA-CAAAAATAATAAT
1 TTTAGGTACCTATTTTAACCAAAAA-AATATT
1102285 TTTAG
1 TTTAG
1102290 ATGCTTAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.20
30 20 0.67
31 4 0.13
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (31 bp):
TTTAGGTACCTATTTTAACCAAAAAAATATT
Found at i:1104354 original size:2 final size:2
Alignment explanation
Indices: 1104342--1104388 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
1104332 AAAATATTAA
1104342 AT AT A- 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
1104383 AT AT AT
1 AT AT AT
1104389 TATTTGGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1107333 original size:72 final size:71
Alignment explanation
Indices: 1107220--1107358 Score: 174
Period size: 72 Copynumber: 1.9 Consensus size: 71
1107210 TAAATTCATC
* * * * *
1107220 CATTCATGCATATTCATGCAAGAAGCCAAATAATCATGTTCACACAAGG-GGCAAGAATTTCAGC
1 CATTCATGAACATTCATCCAAGAAGACAAATAATCAAGTTCACACAAGGTGGCAAGAA-TTCAGC
1107284 CAAGATA
65 CAAGATA
* *
1107291 CATTCATGAACATTCATCCATAGAAGACAAATCAA-CAAGTTCACACAAGGTGGGATGAATTCAG
1 CATTCATGAACATTCATCCA-AGAAGACAAAT-AATCAAGTTCACACAAGGTGGCAAGAATTCAG
1107355 CCAA
64 CCAA
1107359 AGGATGTATT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
71 17 0.29
72 33 0.57
73 8 0.14
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (71 bp):
CATTCATGAACATTCATCCAAGAAGACAAATAATCAAGTTCACACAAGGTGGCAAGAATTCAGCC
AAGATA
Found at i:1111957 original size:21 final size:22
Alignment explanation
Indices: 1111920--1111965 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
1111910 TTTTTAAATA
*
1111920 ATAATACTAATATTATTATTAT
1 ATAATACTAATAATATTATTAT
1111942 ATAATA-TAATAATATTATTAT
1 ATAATACTAATAATATTATTAT
1111963 ATA
1 ATA
1111966 TAATAGATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATACTAATAATATTATTAT
Found at i:1111959 original size:18 final size:18
Alignment explanation
Indices: 1111936--1111970 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1111926 CTAATATTAT
1111936 TATTA-TATAATATAATAA
1 TATTATTAT-ATATAATAA
1111954 TATTATTATATATAATA
1 TATTATTATATATAATA
1111971 GATACGTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTATTATATATAATAA
Found at i:1112404 original size:92 final size:92
Alignment explanation
Indices: 1112274--1112497 Score: 335
Period size: 92 Copynumber: 2.4 Consensus size: 92
1112264 AAATTGATTG
* * *
1112274 ACTTCACTACTC-TTCTGTGAAGGTGGAAATTGAATGACTTGAACAAAATCCATTTCACTACTCT
1 ACTTCACTACTCTTTC-ATGAAGGTGGAAATTGATTGACTTGAACAAAATACATTTCACTACTCT
1112338 TCCGTGAAGATCAGATTCGAGGTTGAAAT
65 T-CGTGAAGATCAGATTCGAGGTTGAAAT
* * *
1112367 ACTTCATTAC-CTTTCATGAAGGTGGAAATTGATTGACTTGAACAGAATATATTTCACTACTCTT
1 ACTTCACTACTCTTTCATGAAGGTGGAAATTGATTGACTTGAACAAAATACATTTCACTACTCTT
* *
1112431 TGTGAAGATCAGATTCGAGGTTGGAAT
66 CGTGAAGATCAGATTCGAGGTTGAAAT
*
1112458 ACTTCACTACTCTTTCGTGAAGGTGGAAATTGATTGACTT
1 ACTTCACTACTCTTTCATGAAGGTGGAAATTGATTGACTT
1112498 CACTACTCTT
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
91 34 0.29
92 73 0.61
93 12 0.10
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (92 bp):
ACTTCACTACTCTTTCATGAAGGTGGAAATTGATTGACTTGAACAAAATACATTTCACTACTCTT
CGTGAAGATCAGATTCGAGGTTGAAAT
Found at i:1112531 original size:35 final size:36
Alignment explanation
Indices: 1112458--1112532 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
1112448 AGGTTGGAAT
*
1112458 ACTTCACTACTCTTTCGTGAAGGTGGAAATTGATTG
1 ACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTG
*
1112494 ACTTCACTACTCTTCCGTGAAGGTTG-AATTGATTG
1 ACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTG
1112529 ACTT
1 ACTT
1112533 GAACATAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
35 13 0.35
36 24 0.65
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (36 bp):
ACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTG
Found at i:1112591 original size:219 final size:220
Alignment explanation
Indices: 1112146--1112752 Score: 787
Period size: 220 Copynumber: 2.8 Consensus size: 220
1112136 TCTGCTCCTT
* * * * * *
1112146 CTTCACTACTCTTCCGTGAAGGTTGAGGATGATAAACTTGAGAAGAATCTATTTCACTATTCTTC
1 CTTCACTACTCTTCCATGAAGGTGGAGAATGATAAACTTGAGAAGAATATATTTCACTACTCTTT
* * ** ** * * *
1112211 CATGAAGAACATTTTTTAGGCTGGAATACTTTACTTCTCTTCCGTGATGGCTGAAATTGATTGAC
66 CGTGAAGATCAGATTCGAGGTTGGAATAC-TTACTACTCTTCCGTGAAGG-TGAAATTGATTGAC
* * *
1112276 TTCACTACTCTTCTGTGAAGGTGGAAATTGAATGACTTGAACAAAATCCATTTCACTACTCTTCC
129 TTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTGAACAAAATACATTTCACTACTCTTCC
*
1112341 GTGAAGATCAGATTCGAGGTTGAAATA
194 GTGAAGATCAAATTCGAGGTTGAAATA
* * **
1112368 CTTCATTAC-CTTTCATGAAGGTGGA-AATTGATTGACTTGA-ACAGAATATATTTCACTACTCT
1 CTTCACTACTCTTCCATGAAGGTGGAGAA-TGATAAACTTGAGA-AGAATATATTTCACTACTCT
*
1112430 TT-GTGAAGATCAGATTCGAGGTTGGAATACTTCACTACTCTTTCGTGAAGGTGGAAATTGATTG
64 TTCGTGAAGATCAGATTCGAGGTTGGAATACTT-ACTACTCTTCCGTGAAGGT-GAAATTGATTG
* * *
1112494 ACTTCACTACTCTTCCGTGAAGGTTG-AATTGATTGACTTGAACATAATATATTTCACTACTCTT
127 ACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTGAACAAAATACATTTCACTACTCTT
* *
1112558 CCGTGAAGATTAAATTTGAGGTT-AGAATA
192 CCGTGAAGATCAAATTCGAGGTTGA-AATA
* * * * *
1112587 CTTCACTACTCTTCCATGAAGGTTGAGGATGGTAAACTTGAGAAGAATCTGTTTCACTACTCTTT
1 CTTCACTACTCTTCCATGAAGGTGGAGAATGATAAACTTGAGAAGAATATATTTCACTACTCTTT
1112652 CGTGAAGATCAGATTCGAGGTTGGAATACTT-CTACTCTTCCGTGAAGGTAGAAATTGATTGACT
66 CGTGAAGATCAGATTCGAGGTTGGAATACTTACTACTCTTCCGTGAAGGT-GAAATTGATTGACT
1112716 TCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTT
130 TCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTT
1112753 CACTACTCTT
Statistics
Matches: 334, Mismatches: 41, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
218 1 0.00
219 122 0.37
220 129 0.39
221 74 0.22
222 8 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (220 bp):
CTTCACTACTCTTCCATGAAGGTGGAGAATGATAAACTTGAGAAGAATATATTTCACTACTCTTT
CGTGAAGATCAGATTCGAGGTTGGAATACTTACTACTCTTCCGTGAAGGTGAAATTGATTGACTT
CACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTGAACAAAATACATTTCACTACTCTTCCGT
GAAGATCAAATTCGAGGTTGAAATA
Found at i:1112607 original size:128 final size:128
Alignment explanation
Indices: 1112383--1113009 Score: 623
Period size: 128 Copynumber: 4.9 Consensus size: 128
1112373 TTACCTTTCA
* *
1112383 TGAAGGTGGAAATTGATTGACTTGAACAGAATATATTTCACTACTCTT-TGTGAAGATCAGATTC
1 TGAAGGTTG-AATTGATTGACTTGAACAGAATATATTTCACTACTCTTCCGTGAAGATCAGATTC
*
1112447 GAGGTTGGAATACTTCACTACTCTTTCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCG
65 GAGGTTGGAATACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCG
* * * *
1112511 TGAAGGTTGAATTGATTGACTTGAACATAATATATTTCACTACTCTTCCGTGAAGATTAAATTTG
1 TGAAGGTTGAATTGATTGACTTGAACAGAATATATTTCACTACTCTTCCGTGAAGATCAGATTCG
* * **
1112576 AGGTTAGAATACTTCACTACTCTTCCATGAAGGTTGAGGATGGTAAACTTGAGAAGAATCTGTTT
66 AGGTTGGAATACTTCACTACTCTTCCGTG-A-----AGG-TGG-AAA-TTGA-TTG-A-C---TT
*
1112641 CACTACTCTTTCG
116 CACTACTCTTCCG
* * * * *
1112654 TGAA-GAT-CA--GATTCGAGGTTG----G-A-ATACTT--CTACTCTTCCGTGAAGGT-AGAAA
1 TGAAGGTTGAATTGATT-GA-CTTGAACAGAATATATTTCACTACTCTTCCGTGAAGATCAG--A
1112706 TT-GA--TT-G---ACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTC
62 TTCGAGGTTGGAATACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTC
1112764 CG
127 CG
* * *
1112766 TGAAGGTTGAATTGATTGACTTGAACAAAATATGTTTCACTATTCTTCCGTGAAGATCAGATTCG
1 TGAAGGTTGAATTGATTGACTTGAACAGAATATATTTCACTACTCTTCCGTGAAGATCAGATTCG
* * * *
1112831 AGGTTGGAATACTTTACTACTCTTTCGTGAAGGTGGAAATTGATTTACTTCACTACTCTTTCG
66 AGGTTGGAATACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCG
* * * * * **
1112894 TGAAGGTTAAATTGATTGACTTAAATAGAATCTGTTTCA-TAACTCTTCTATGAAGATCAGATTC
1 TGAAGGTTGAATTGATTGACTTGAACAGAATATATTTCACT-ACTCTTCCGTGAAGATCAGATTC
1112958 GAAGGTTGGAATACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTT
65 G-AGGTTGGAATACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTT
1113010 GAACAGAATT
Statistics
Matches: 411, Mismatches: 46, Indels: 83
0.76 0.09 0.15
Matches are distributed among these distances:
112 18 0.04
113 2 0.00
114 4 0.01
115 3 0.01
116 5 0.01
117 1 0.00
118 4 0.01
119 4 0.01
120 7 0.02
121 6 0.01
122 18 0.04
123 2 0.00
124 2 0.00
125 1 0.00
126 1 0.00
127 56 0.14
128 151 0.37
129 48 0.12
130 1 0.00
131 2 0.00
132 1 0.00
133 19 0.05
134 6 0.01
135 8 0.02
136 4 0.01
137 4 0.01
138 1 0.00
139 5 0.01
140 3 0.01
141 4 0.01
142 2 0.00
143 18 0.04
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (128 bp):
TGAAGGTTGAATTGATTGACTTGAACAGAATATATTTCACTACTCTTCCGTGAAGATCAGATTCG
AGGTTGGAATACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCG
Found at i:1112658 original size:93 final size:92
Alignment explanation
Indices: 1112494--1112710 Score: 253
Period size: 93 Copynumber: 2.4 Consensus size: 92
1112484 AAATTGATTG
** *
1112494 ACTTCACTACTCTTCCGTGAAGGTTGAATTGATTGACTTGAACATAATATATTTCACTACTCTTC
1 ACTTCACTACTCTTCCGTGAAGGTTGAATTGATAAACTTGAACAGAATATATTTCACTACTCTTC
* *
1112559 CGTGAAGATTAAATTTGAGGTTAGAAT
66 CGTGAAGATCAAATTCGAGGTTAGAAT
* * * *
1112586 ACTTCACTACTCTTCCATGAAGGTTGAGGA-TGGTAAACTTGAGA-AGAATCTGTTTCACTACTC
1 ACTTCACTACTCTTCCGTGAAGGTTGA--ATTGATAAACTTGA-ACAGAATATATTTCACTACTC
* * *
1112649 TTTCGTGAAGATCAGATTCGAGGTTGGAAT
63 TTCCGTGAAGATCAAATTCGAGGTTAGAAT
*
1112679 ACTT--CTACTCTTCCGTGAAGGTAGAAATTGAT
1 ACTTCACTACTCTTCCGTGAAGGTTG-AATTGAT
1112711 TGACTTCACT
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
90 1 0.01
91 21 0.20
92 27 0.26
93 54 0.51
94 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (92 bp):
ACTTCACTACTCTTCCGTGAAGGTTGAATTGATAAACTTGAACAGAATATATTTCACTACTCTTC
CGTGAAGATCAAATTCGAGGTTAGAAT
Found at i:1112730 original size:36 final size:36
Alignment explanation
Indices: 1112683--1112787 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
1112673 TGGAATACTT
1112683 CTACTCTTCCGTGAAGGTAGAAATTGATTGACTTCA
1 CTACTCTTCCGTGAAGGTAGAAATTGATTGACTTCA
*
1112719 CTACTCTTCCGTGAAGGTGGAAATTGATTGACTTCA
1 CTACTCTTCCGTGAAGGTAGAAATTGATTGACTTCA
*
1112755 CTACTCTTCCGTGAAGGTTG-AATTGATTGACTT
1 CTACTCTTCCGTGAAGGTAGAAATTGATTGACTT
1112788 GAACAAAATA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 13 0.19
36 54 0.81
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (36 bp):
CTACTCTTCCGTGAAGGTAGAAATTGATTGACTTCA
Found at i:1112829 original size:162 final size:163
Alignment explanation
Indices: 1112586--1112915 Score: 479
Period size: 162 Copynumber: 2.0 Consensus size: 163
1112576 AGGTTAGAAT
* * *
1112586 ACTTCACTACTCTTCCATGAAGGTTGAGGATGGTAAACTTGAGAAGAATCTGTTTCACTACTCTT
1 ACTTCACTACTCTTCCATGAAGGTTGA-GATGATAAACTTGAGAAAAATATGTTTCACTACTCTT
*
1112651 TCGTGAAGATCAGATTCGAGGTTGGAATAC-TT-CTACTCTTCCGTGAAGGTAGAAATTGATTGA
65 CCGTGAAGATCAGATTCGAGGTTGGAATACTTTACTACTCTTCCGTGAAGGTAGAAATTGATTGA
1112714 CTTCACTACTCTTCCGTGAAGGTGGAAATTGATTG
130 CTTCACTACTCTTCCGTGAAGGT-GAAATTGATTG
* ** *
1112749 ACTTCACTACTCTTCCGTGAAGGTTGA-ATTGATTGACTTGA-ACAAAATATGTTTCACTATTCT
1 ACTTCACTACTCTTCCATGAAGGTTGAGA-TGATAAACTTGAGA-AAAATATGTTTCACTACTCT
* * *
1112812 TCCGTGAAGATCAGATTCGAGGTTGGAATACTTTACTACTCTTTCGTGAAGGTGGAAATTGATTT
64 TCCGTGAAGATCAGATTCGAGGTTGGAATACTTTACTACTCTTCCGTGAAGGTAGAAATTGATTG
* *
1112877 ACTTCACTACTCTTTCGTGAAGGTTAAATTGATTG
129 ACTTCACTACTCTTCCGTGAAGGTGAAATTGATTG
1112912 ACTT
1 ACTT
1112916 AAATAGAATC
Statistics
Matches: 150, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
161 2 0.01
162 56 0.37
163 42 0.28
164 50 0.33
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (163 bp):
ACTTCACTACTCTTCCATGAAGGTTGAGATGATAAACTTGAGAAAAATATGTTTCACTACTCTTC
CGTGAAGATCAGATTCGAGGTTGGAATACTTTACTACTCTTCCGTGAAGGTAGAAATTGATTGAC
TTCACTACTCTTCCGTGAAGGTGAAATTGATTG
Found at i:1112852 original size:383 final size:385
Alignment explanation
Indices: 1112383--1113102 Score: 1083
Period size: 383 Copynumber: 1.9 Consensus size: 385
1112373 TTACCTTTCA
* *
1112383 TGAAGGTGGAAATTGATTGACTTGAACAGAATATATTTCACTACTCTTTGTGAAGATCAGATTCG
1 TGAAGGTGGAAATTGATTGACTTGAACAAAATATATTTCACTACTCTTCGTGAAGATCAGATTCG
1112448 AGGTTGGAATACTTCACTACTCTTTCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCGTG
66 AGGTTGGAATACTTCACTACTCTTTCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCGTG
* * * * * *
1112513 AAGGTTGAATTGATTGACTTGAACATAATATATTTCACT-ACTCTTCCGTGAAGATTAAATTTG-
131 AAGGTTAAATTGATTGACTTAAACAGAATATATTTCA-TAACTCTTCCATGAAGATCAAATTCGA
* * *
1112576 AGGTTAGAATACTTCACTACTCTTCCATGAAGGTTGAGGA-TGGTAAACTTGAGA-AGAATCTGT
195 AGGTTAGAATACTTCACTACTCTTCCATGAAGGTGGA-AATTGATAAACTTGA-ACAGAATCTGT
*
1112639 TTCACTACTCTTTCGTGAAGATCAGATTCGAGGTTGGAATACTT-CTACTCTTCCGTGAAGGTAG
258 TTCACTACTCTTCCGTGAAGATCAGATTCGAGGTTGGAATACTTACTACTCTTCCGTGAAGGTAG
1112703 AAATTGATTGACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCG
323 AAATTGATTGACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCG
* * *
1112766 TGAAGGTTG-AATTGATTGACTTGAACAAAATATGTTTCACTATTCTTCCGTGAAGATCAGATTC
1 TGAAGGTGGAAATTGATTGACTTGAACAAAATATATTTCACTACTCTT-CGTGAAGATCAGATTC
* * *
1112830 GAGGTTGGAATACTTTACTACTCTTTCGTGAAGGTGGAAATTGATTTACTTCACTACTCTTTCGT
65 GAGGTTGGAATACTTCACTACTCTTTCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCGT
* * * * *
1112895 GAAGGTTAAATTGATTGACTTAAATAGAATCTGTTTCATAACTCTTCTATGAAGATCAGATTCGA
130 GAAGGTTAAATTGATTGACTTAAACAGAATATATTTCATAACTCTTCCATGAAGATCAAATTCGA
* * ** *
1112960 AGGTTGGAATACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTGAACAGAATTTGTTT
195 AGGTTAGAATACTTCACTACTCTTCCATGAAGGTGGAAATTGATAAACTTGAACAGAATCTGTTT
* *
1113025 CACTACTCTTCCGTGAAGATCATATTCGAGGTTGGAATACTTCACTACTCTTCCGTGAAGGTGGA
260 CACTACTCTTCCGTGAAGATCAGATTCGAGGTTGGAATACTT-ACTACTCTTCCGTGAAGGTAGA
1113090 AATTGATTGACTT
324 AATTGATTGACTT
1113103 GAACAAATAT
Statistics
Matches: 300, Mismatches: 30, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
382 36 0.12
383 138 0.46
384 93 0.31
386 33 0.11
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (385 bp):
TGAAGGTGGAAATTGATTGACTTGAACAAAATATATTTCACTACTCTTCGTGAAGATCAGATTCG
AGGTTGGAATACTTCACTACTCTTTCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCGTG
AAGGTTAAATTGATTGACTTAAACAGAATATATTTCATAACTCTTCCATGAAGATCAAATTCGAA
GGTTAGAATACTTCACTACTCTTCCATGAAGGTGGAAATTGATAAACTTGAACAGAATCTGTTTC
ACTACTCTTCCGTGAAGATCAGATTCGAGGTTGGAATACTTACTACTCTTCCGTGAAGGTAGAAA
TTGATTGACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTCACTACTCTTCCG
Found at i:1112887 original size:36 final size:35
Alignment explanation
Indices: 1112840--1112915 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 35
1112830 GAGGTTGGAA
*
1112840 TACTTTACTACTCTTTCGTGAAGGTGGAAATTGATT
1 TACTTCACTACTCTTTCGTGAAGGT-GAAATTGATT
*
1112876 TACTTCACTACTCTTTCGTGAAGGTTAAATTGATT
1 TACTTCACTACTCTTTCGTGAAGGTGAAATTGATT
*
1112911 GACTT
1 TACTT
1112916 AAATAGAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 13 0.35
36 24 0.65
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (35 bp):
TACTTCACTACTCTTTCGTGAAGGTGAAATTGATT
Found at i:1113063 original size:93 final size:94
Alignment explanation
Indices: 1112876--1113143 Score: 409
Period size: 93 Copynumber: 2.9 Consensus size: 94
1112866 GAAATTGATT
* * * * *
1112876 TACTTCACTACTCTTTCGTGAAGGT-TAAATTGATTGACTTAAATAGAATCTGTTTCA-TAACTC
1 TACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTGAACAGAATATGTTTCACT-ACTC
** *
1112939 TTCTATGAAGATCAGATTCGAAGGTTGGAA
65 TTCCGTGAAGATCATATTCGAAGGTTGGAA
*
1112969 TACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTGAACAGAATTTGTTTCACTACTCT
1 TACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTGAACAGAATATGTTTCACTACTCT
1113034 TCCGTGAAGATCATATTCG-AGGTTGGAA
66 TCCGTGAAGATCATATTCGAAGGTTGGAA
1113062 TACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTGAACA-AATATGTTTCACTACTCT
1 TACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTGAACAGAATATGTTTCACTACTCT
*
1113126 TCCGTCAAGATCATATTC
66 TCCGTGAAGATCATATTC
1113144 AAGTTTGATT
Statistics
Matches: 163, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
92 34 0.21
93 79 0.48
94 49 0.30
95 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (94 bp):
TACTTCACTACTCTTCCGTGAAGGTGGAAATTGATTGACTTGAACAGAATATGTTTCACTACTCT
TCCGTGAAGATCATATTCGAAGGTTGGAA
Found at i:1113259 original size:20 final size:20
Alignment explanation
Indices: 1113226--1113270 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1113216 GAAAGACTAG
1113226 CAAATGACCAGAAGGATTTA
1 CAAATGACCAGAAGGATTTA
* * *
1113246 CAAATTACCTGAAGGTTTTA
1 CAAATGACCAGAAGGATTTA
*
1113266 TAAAT
1 CAAAT
1113271 CTGTGGGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
CAAATGACCAGAAGGATTTA
Found at i:1120754 original size:13 final size:12
Alignment explanation
Indices: 1120729--1120762 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
1120719 TGTGTCTCTA
1120729 TCTCTATGTTGTC
1 TCTCT-TGTTGTC
1120742 TCTCTTGTGTGTC
1 TCTCTTGT-TGTC
1120755 TCTCTTGT
1 TCTCTTGT
1120763 AGGATCGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.03, C:0.24, G:0.18, T:0.56
Consensus pattern (12 bp):
TCTCTTGTTGTC
Found at i:1121150 original size:18 final size:19
Alignment explanation
Indices: 1121113--1121150 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1121103 TCTACTGGGA
*
1121113 TTGGGCCTGAATCGGGTTG
1 TTGGGCCTGAATCCGGTTG
1121132 TTGGGCCTGAA-CCGGTTG
1 TTGGGCCTGAATCCGGTTG
1121150 T
1 T
1121151 AAACTAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.11, C:0.18, G:0.39, T:0.32
Consensus pattern (19 bp):
TTGGGCCTGAATCCGGTTG
Found at i:1121765 original size:28 final size:28
Alignment explanation
Indices: 1121725--1121791 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
1121715 TACTCGATGG
1121725 TTTCATTTAATTATTCCAGATGTATATA
1 TTTCATTTAATTATTCCAGATGTATATA
1121753 TTTCATTTAATTATTCCAGATGTATATA
1 TTTCATTTAATTATTCCAGATGTATATA
1121781 TTTCATTTAAT
1 TTTCATTTAAT
1121792 GATTGATGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (28 bp):
TTTCATTTAATTATTCCAGATGTATATA
Found at i:1123731 original size:17 final size:17
Alignment explanation
Indices: 1123701--1123738 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1123691 GAATGTTAGT
1123701 ATAAAATAACATAAAAG
1 ATAAAATAACATAAAAG
* *
1123718 ATAAAGTAATATAAAAG
1 ATAAAATAACATAAAAG
1123735 -TAAA
1 ATAAA
1123739 CCTATAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (17 bp):
ATAAAATAACATAAAAG
Found at i:1126920 original size:11 final size:11
Alignment explanation
Indices: 1126863--1126929 Score: 55
Period size: 11 Copynumber: 5.7 Consensus size: 11
1126853 ATCTACAAAA
1126863 ATATT-TTATT
1 ATATTATTATT
1126873 ATATTATATATAT
1 ATATTAT-TAT-T
1126886 ATATATATATATTT
1 ATAT-TAT-TA-TT
*
1126900 TTATTATTATT
1 ATATTATTATT
*
1126911 ATATTTTTATT
1 ATATTATTATT
*
1126922 TTATTATT
1 ATATTATT
1126930 TTTGCAGGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.11
11 18 0.38
12 5 0.11
13 8 0.17
14 10 0.21
15 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATATTATTATT
Found at i:1126926 original size:19 final size:17
Alignment explanation
Indices: 1126864--1126932 Score: 72
Period size: 17 Copynumber: 4.0 Consensus size: 17
1126854 TCTACAAAAA
*
1126864 TATT-TTATTATATTATA
1 TATTATTATTATATT-TT
1126881 TATATATATATATATATTTT
1 TAT-TAT-TAT-TATATTTT
1126901 TATTATTATTATATTTT
1 TATTATTATTATATTTT
1126918 TATT-TTATTAT-TTTT
1 TATTATTATTATATTTT
1126933 GCAGGCCCTG
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
15 4 0.09
16 7 0.15
17 15 0.32
18 4 0.09
19 4 0.09
20 7 0.15
21 6 0.13
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTATTATTATATTTT
Found at i:1126931 original size:8 final size:9
Alignment explanation
Indices: 1126867--1126928 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 9
1126857 ACAAAAATAT
1126867 TTTATTATA
1 TTTATTATA
1126876 TTATATATATA
1 TT-TAT-TATA
*
1126887 TATATATATA
1 TTTAT-TATA
1126897 TTT-TTAT-
1 TTTATTATA
1126904 TATTATTATA
1 T-TTATTATA
1126914 TTT-TTAT-
1 TTTATTATA
1126921 TTTATTAT
1 TTTATTAT
1126929 TTTTGCAGGC
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
7 4 0.09
8 13 0.29
9 9 0.20
10 14 0.31
11 5 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTATTATA
Found at i:1127026 original size:33 final size:33
Alignment explanation
Indices: 1126979--1127049 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1126969 TTCAAAAAAT
* *
1126979 AAACCAACGTATTTGAGTCCTATTGAAACACTA
1 AAACCAACGGATTTGAGTACTATTGAAACACTA
*
1127012 CAACCAACGGATTTGAGTACTATTGAAACACTA
1 AAACCAACGGATTTGAGTACTATTGAAACACTA
1127045 AAACC
1 AAACC
1127050 GAAGCATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.24
Consensus pattern (33 bp):
AAACCAACGGATTTGAGTACTATTGAAACACTA
Found at i:1127465 original size:32 final size:29
Alignment explanation
Indices: 1127416--1127488 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 29
1127406 TATCTTTTTA
*
1127416 CATTGTTTTA-TATATATTTATTTATTCATTATT
1 CATT-TTTTATTATATA-TTA-TTA-T-ATTAAT
1127449 CATTTTTTATTA-ATATTATTATATTAAT
1 CATTTTTTATTATATATTATTATATTAAT
1127477 -ATTTTTTATTAT
1 CATTTTTTATTAT
1127489 TCTTTTCTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 11 0.30
28 5 0.14
29 1 0.03
30 3 0.08
31 3 0.08
32 8 0.22
33 6 0.16
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (29 bp):
CATTTTTTATTATATATTATTATATTAAT
Found at i:1128568 original size:20 final size:20
Alignment explanation
Indices: 1128539--1128577 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1128529 TCATTTTCAA
1128539 TTTTACATTTAGAAATTATT
1 TTTTACATTTAGAAATTATT
* *
1128559 TTTTATATTTAGAATTTAT
1 TTTTACATTTAGAAATTAT
1128578 GGTATGAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTTACATTTAGAAATTATT
Found at i:1135013 original size:27 final size:27
Alignment explanation
Indices: 1134964--1135050 Score: 147
Period size: 27 Copynumber: 3.2 Consensus size: 27
1134954 TATTCTGGGG
* *
1134964 TTTAGAGGTACTTTAGGTCATTTTACAC
1 TTTAGAGGCA-TTTTGGTCATTTTACAC
1134992 TTTAGAGGCATTTTGGTCATTTTACAC
1 TTTAGAGGCATTTTGGTCATTTTACAC
1135019 TTTAGAGGCATTTTGGTCATTTTACAC
1 TTTAGAGGCATTTTGGTCATTTTACAC
1135046 TTTAG
1 TTTAG
1135051 GGGTAATTCT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 48 0.84
28 9 0.16
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (27 bp):
TTTAGAGGCATTTTGGTCATTTTACAC
Found at i:1136522 original size:20 final size:20
Alignment explanation
Indices: 1136470--1136515 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1136460 AATTTCCTAT
*
1136470 AATTTCTAAAATTGACTACC
1 AATTTCTAAAACTGACTACC
1136490 AATTTCTAAAACTGACTACC
1 AATTTCTAAAACTGACTACC
*
1136510 AGTTTC
1 AATTTC
1136516 AGAAACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (20 bp):
AATTTCTAAAACTGACTACC
Found at i:1137628 original size:177 final size:182
Alignment explanation
Indices: 1137412--1137771 Score: 685
Period size: 177 Copynumber: 2.0 Consensus size: 182
1137402 CCCTTAGAGT
1137412 GTTAAGATTACTTTAATGTTTGGAATTGTGATAATGACTCTTCTTTTTTCTTTGAAAGTCCATAA
1 GTTAAGATTACTTTAATGTTTGGAATTGTGATAATGACTCTTCTTTTTTCTTTGAAAGTCCATAA
1137477 GATATGTTTGATGACCCCGCTCATAGTCAGGATGGTTGTGATAAGAGTCGTGCCTCATTAGTGAA
66 GATATGTTTGATGACCCCGCTCATAGTCAGGATGGTTGTGATAAGAGTCGTGCCTCATTAGTGAA
1137542 AGAAATTGGTGATGAGTTTGTCCC-AACTCCGAGGAGAT-GGCAT-CCAAAG
131 AGAAATTGGTGATGAGTTTGTCCCAAACTCCGAGGAGATGGGCATCCCAAAG
1137591 GTTAAGATTAC-TTAATG-TTGGAATTGTGATAATGACTCTTCTTTTTTCTTTGAAAGTCCATAA
1 GTTAAGATTACTTTAATGTTTGGAATTGTGATAATGACTCTTCTTTTTTCTTTGAAAGTCCATAA
1137654 GATATGTTTGATGACCCCGCTCATAGTCAGGATGGTTGTGATAAGAGTCGTGCCTCATTAGTGAA
66 GATATGTTTGATGACCCCGCTCATAGTCAGGATGGTTGTGATAAGAGTCGTGCCTCATTAGTGAA
1137719 AGAAATTGGTGATGAGTTTGTCCCAAACTCCGAGGAGATGGGCATCCCAAAG
131 AGAAATTGGTGATGAGTTTGTCCCAAACTCCGAGGAGATGGGCATCCCAAAG
1137771 G
1 G
1137772 ATATGGGGAT
Statistics
Matches: 178, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
177 135 0.76
178 20 0.11
179 16 0.09
180 7 0.04
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (182 bp):
GTTAAGATTACTTTAATGTTTGGAATTGTGATAATGACTCTTCTTTTTTCTTTGAAAGTCCATAA
GATATGTTTGATGACCCCGCTCATAGTCAGGATGGTTGTGATAAGAGTCGTGCCTCATTAGTGAA
AGAAATTGGTGATGAGTTTGTCCCAAACTCCGAGGAGATGGGCATCCCAAAG
Found at i:1138477 original size:2 final size:2
Alignment explanation
Indices: 1138470--1138524 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
1138460 GTAATTCTTT
1138470 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
1138512 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
1138525 TTTTTGTTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1139470 original size:21 final size:21
Alignment explanation
Indices: 1139444--1139485 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1139434 TCTACCTAAT
1139444 ATTAGGTGGTGTTGTCCTTTG
1 ATTAGGTGGTGTTGTCCTTTG
1139465 ATTAGGTGGTGTTGTCCTTTG
1 ATTAGGTGGTGTTGTCCTTTG
1139486 GTTTGAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.33, T:0.48
Consensus pattern (21 bp):
ATTAGGTGGTGTTGTCCTTTG
Found at i:1141073 original size:54 final size:54
Alignment explanation
Indices: 1140991--1141181 Score: 303
Period size: 54 Copynumber: 3.5 Consensus size: 54
1140981 GATAAAAACC
*
1140991 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACT
1 TAAGAAATTCATAACAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACT
* *
1141045 TAAGAAATTCATAACGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
1 TAAGAAATTCATAACAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACT
* * *
1141099 TAATAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTATGTGTGCAACT
1 TAAGAAATTCATAACAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACT
*
1141153 TAAGAAATTCATAATC-TGTTTATGAATTT
1 TAAGAAATTCATAA-CAAGTTTATGAATTT
1141182 TCACTAACTA
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
54 125 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (54 bp):
TAAGAAATTCATAACAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACT
Found at i:1141176 original size:108 final size:108
Alignment explanation
Indices: 1140987--1141181 Score: 347
Period size: 108 Copynumber: 1.8 Consensus size: 108
1140977 TCAGGATAAA
*
1140987 AACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACTTAAGAAA
1 AACCTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTATGTGTGCAACTTAAGAAA
1141052 TTCATAACGAGTTTATGAATTTCCGTATTGGCACTATGTGTGC
66 TTCATAACGAGTTTATGAATTTCCGTATTGGCACTATGTGTGC
*
1141095 AACCTAATAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTATGTGTGCAACTTAAGAAA
1 AACCTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTATGTGTGCAACTTAAGAAA
*
1141160 TTCATAATC-TGTTTATGAATTT
66 TTCATAA-CGAGTTTATGAATTT
1141182 TCACTAACTA
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
108 82 0.99
109 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (108 bp):
AACCTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTATGTGTGCAACTTAAGAAA
TTCATAACGAGTTTATGAATTTCCGTATTGGCACTATGTGTGC
Found at i:1143265 original size:10 final size:10
Alignment explanation
Indices: 1143250--1143274 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1143240 TCATTCATTA
1143250 CATGAATTTG
1 CATGAATTTG
1143260 CATGAATTTG
1 CATGAATTTG
1143270 CATGA
1 CATGA
1143275 GCTTTATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (10 bp):
CATGAATTTG
Found at i:1143435 original size:17 final size:17
Alignment explanation
Indices: 1143415--1143482 Score: 66
Period size: 17 Copynumber: 4.0 Consensus size: 17
1143405 ATCCATGCAT
1143415 TTAGTTCATTAAT-AAA
1 TTAGTTCATTAATCAAA
1143431 GTTAGTTCATTAATCAAA
1 -TTAGTTCATTAATCAAA
* * *
1143449 CTAGTTCATTTATTAAA
1 TTAGTTCATTAATCAAA
* * *
1143466 CTATTTAATTAATCAAA
1 TTAGTTCATTAATCAAA
1143483 CTAACTCTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 40 0.93
18 3 0.07
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (17 bp):
TTAGTTCATTAATCAAA
Found at i:1143454 original size:34 final size:34
Alignment explanation
Indices: 1143416--1143485 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
1143406 TCCATGCATT
* *
1143416 TAGTTCA-TTAATAAAGTTAGTTCATTAATCAAAC
1 TAGTTCATTTAATAAA-CTAGTTAATTAATCAAAC
* *
1143450 TAGTTCATTTATTAAACTATTTAATTAATCAAAC
1 TAGTTCATTTAATAAACTAGTTAATTAATCAAAC
1143484 TA
1 TA
1143486 ACTCTTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 24 0.77
35 7 0.23
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.41
Consensus pattern (34 bp):
TAGTTCATTTAATAAACTAGTTAATTAATCAAAC
Found at i:1145752 original size:21 final size:21
Alignment explanation
Indices: 1145728--1145775 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
1145718 GGATAACTTC
1145728 GGGACAGCTCAAGATCATTTT
1 GGGACAGCTCAAGATCATTTT
1145749 GGGACAGCTCAAGATCATTTT
1 GGGACAGCTCAAGATCATTTT
*
1145770 GTGACA
1 GGGACA
1145776 AAGTTGTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (21 bp):
GGGACAGCTCAAGATCATTTT
Found at i:1160031 original size:38 final size:38
Alignment explanation
Indices: 1159984--1160076 Score: 134
Period size: 38 Copynumber: 2.4 Consensus size: 38
1159974 TCGAGGGTTT
*
1159984 TGTGTTTCAAGAGAAACATTTTCAA-AGGTTTTTGTGTG
1 TGTGTTTCAAGAGAAACAATTTCAAGAGGTTTTT-TGTG
* * *
1160022 TGTGTTTCAAGAGAAACAATTTCAAGGGGTTTTTTTTT
1 TGTGTTTCAAGAGAAACAATTTCAAGAGGTTTTTTGTG
1160060 TGTGTTTCAAGAGAAAC
1 TGTGTTTCAAGAGAAAC
1160077 TGTCTCAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 43 0.86
39 7 0.14
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.41
Consensus pattern (38 bp):
TGTGTTTCAAGAGAAACAATTTCAAGAGGTTTTTTGTG
Found at i:1160085 original size:38 final size:38
Alignment explanation
Indices: 1159981--1160088 Score: 130
Period size: 38 Copynumber: 2.8 Consensus size: 38
1159971 AACTCGAGGG
1159981 TTTTGTGTTTCAAGAGAAACATTTTCAA-AGGTTTTTGT
1 TTTTGTGTTTCAAGAGAAAC-TTTTCAAGAGGTTTTTGT
* * * *
1160019 GTGTGTGTTTCAAGAGAAACAATTTCAAGGGGTTTTT-T
1 TTTTGTGTTTCAAGAGAAAC-TTTTCAAGAGGTTTTTGT
*
1160057 TTTTGTGTTTCAAGAGAAACTGTCTCAAGAGG
1 TTTTGTGTTTCAAGAGAAACT-TTTCAAGAGG
1160089 GACAAAATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 52 0.88
39 7 0.12
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (38 bp):
TTTTGTGTTTCAAGAGAAACTTTTCAAGAGGTTTTTGT
Found at i:1160111 original size:36 final size:36
Alignment explanation
Indices: 1160062--1160178 Score: 166
Period size: 36 Copynumber: 3.2 Consensus size: 36
1160052 TTTTTTTTTG
*
1160062 TGTTTCAAGAGAAACTGTCTCAAGAGG-GACAAAATT
1 TGTTTCAAAAGAAACTGTCTCAAG-GGAGACAAAATT
1160098 TGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAACTT
1 TGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAA-TT
* *
1160135 AG-TTCTAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTC-AAAAGAAACTGTCTCAAGGGAGACAAAATT
1160171 TGTTTCAA
1 TGTTTCAA
1160179 GGAAAAGATA
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
35 2 0.03
36 38 0.52
37 33 0.45
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (36 bp):
TGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATT
Found at i:1160338 original size:37 final size:37
Alignment explanation
Indices: 1160287--1160476 Score: 134
Period size: 37 Copynumber: 5.4 Consensus size: 37
1160277 TCGAGGTTTA
* *
1160287 TGTTTCAAGAGAAACTATCTCAAGGGAGAGAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
*
1160324 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
** * * * *
1160360 AATTTCAAAGGAAA-TGTTTTCAA---TG------TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGGGAGACAAAATTT
* *
1160388 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
* * * *
1160426 TGTTTCAAGGGAAACTACCCCAAGCGAGATAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
*
1160462 TATTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
1160477 GTTTTCAATG
Statistics
Matches: 117, Mismatches: 23, Indels: 27
0.70 0.14 0.16
Matches are distributed among these distances:
28 2 0.02
29 15 0.13
30 1 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 34 0.29
37 59 0.50
38 3 0.03
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
Found at i:1160380 original size:102 final size:102
Alignment explanation
Indices: 1160260--1160499 Score: 381
Period size: 102 Copynumber: 2.4 Consensus size: 102
1160250 ATATTTTATG
* * *
1160260 TTTCAAGGGAAACGTTTTCGAGGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGAGAAAATTTT
1 TTTCAAGGGAAACGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
* *
1160325 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
* * *
1160362 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAACGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
* * *
1160427 GTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
1160464 TTTCAAGGGAAACGTTTTCAATGTTTATGTTTCAAG
1 TTTCAAGGGAAACGTTTTCAATGTTTATGTTTCAAG
1160500 GGAGACAAAA
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 125 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (102 bp):
TTTCAAGGGAAACGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
Found at i:1160509 original size:87 final size:87
Alignment explanation
Indices: 1160408--1160586 Score: 304
Period size: 87 Copynumber: 2.1 Consensus size: 87
1160398 AGAAACTGTC
* *
1160408 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGG
1 TCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
1160473 AAACGTTTTCAATGTTTATGTT
66 AAACGTTTTCAATGTTTATGTT
* * *
1160495 TCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
*
1160560 AAATGTTTTCAATGTTTATGTT
66 AAACGTTTTCAATGTTTATGTT
1160582 TCAAG
1 TCAAG
1160587 AGAAACTGTC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.32
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
AAACGTTTTCAATGTTTATGTT
Found at i:1160673 original size:102 final size:102
Alignment explanation
Indices: 1160495--1160695 Score: 224
Period size: 102 Copynumber: 2.0 Consensus size: 102
1160485 TGTTTATGTT
* * * * * **
1160495 TCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATATCTCAAGCGAGATAAAATTCATTTCAAGAA
** * *
1160560 AAATGTTTTC-AATGTTTATGTTTCAAGAGAAACTGTC
66 AAACATATTCAAATATTT-TGTTTCAAGAGAAACTGTC
* * * ** *
1160597 TCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATGTCTCAAGGGAGATGAAATTTGTTTCAATAA
1 TCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATATCTCAAGCGAGATAAAATTCATTTCAAGAA
*
1160662 AAACATATTCAAATATTTTGTTTCAAGGGAAACT
66 AAACATATTCAAATATTTTGTTTCAAGAGAAACT
1160696 TGGAAACTGT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
102 74 0.93
103 6 0.08
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (102 bp):
TCAAGGGAGACAAAATTTAGTTCCAAAAGAAAATATCTCAAGCGAGATAAAATTCATTTCAAGAA
AAACATATTCAAATATTTTGTTTCAAGAGAAACTGTC
Found at i:1160686 original size:189 final size:189
Alignment explanation
Indices: 1160306--1160691 Score: 540
Period size: 189 Copynumber: 2.0 Consensus size: 189
1160296 AGAAACTATC
* *
1160306 TCAAGGGAGAGAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
1 TCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
* * **
1160371 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGG
66 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
* ** * * *
1160436 GAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGGAAACGTTTTCAATGTTTATGTT
131 GAAAATACCCCAAGCGAGATAAAATTTATTTCAAGAAAAACATATTCAATATTTATGTT
** * * *
1160495 TCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
1160560 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
66 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
** * * * * *
1160625 GAAAATGTCTCAAGGGAGATGAAATTTGTTTCAATAAAAACATATTCAAATATTT-TGTT
131 GAAAATACCCCAAGCGAGATAAAATTTATTTCAAGAAAAACATATTC-AATATTTATGTT
1160684 TCAAGGGA
1 TCAAGGGA
1160692 AACTTGGAAA
Statistics
Matches: 172, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
189 166 0.97
190 6 0.03
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (189 bp):
TCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
GAAAATACCCCAAGCGAGATAAAATTTATTTCAAGAAAAACATATTCAATATTTATGTT
Found at i:1161156 original size:106 final size:106
Alignment explanation
Indices: 1160891--1161161 Score: 400
Period size: 106 Copynumber: 2.6 Consensus size: 106
1160881 CTGGAACTAA
* * * ** * *
1160891 GAAATTGTTTGTTGACAGCTAGCCGCCCCTTCGA-TGTGAAGTTGAGTTTGTGATGTCTTGAGTC
1 GAAATTGTTTGTTGACAACCAGCCGTCCCTTC-ATTGTGAAGTTGAACTTGTGTTGTCTCGAGTC
1160955 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
65 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
1160997 GAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTCGTGTTATCTCGAGTCC
1 GAAATTGTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
*
1161062 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGG
66 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* * *
1161103 GAAATTATTTGTTGACAACCAGTCGTCCCTTCATTGTGGAGTTGAACTTGTGTTGTCTC
1 GAAATTGTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTC
1161162 AAGTGGCACG
Statistics
Matches: 147, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
106 147 1.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (106 bp):
GAAATTGTTTGTTGACAACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
Found at i:1161784 original size:32 final size:32
Alignment explanation
Indices: 1161743--1161851 Score: 103
Period size: 32 Copynumber: 3.4 Consensus size: 32
1161733 TTTGCATCAG
* * *
1161743 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTC
*
1161775 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTC
* * * * *
1161807 GATGTTAAATCTAAAAAAAATGCCTCGACATTT
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTC
*
1161840 AATGTTGAATCT
1 GATGTTGAATCT
1161852 TTAAAGATGC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
32 37 0.57
33 28 0.43
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTC
Found at i:1161830 original size:33 final size:32
Alignment explanation
Indices: 1161761--1161851 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 32
1161751 ATTCCCAAAG
* * *
1161761 ATGCCCCAATATTCGATGTTGAATCTCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTAAAAAA
*
1161793 ATGCCCCAACATTTGATGTTAAATCTAAAAAAA
1 ATGCCCCAACATTTGATGTTGAATCT-AAAAAA
* * *
1161826 ATGCCTCGACATTTAATGTTGAATCT
1 ATGCCCCAACATTTGATGTTGAATCT
1161852 TTAAAGATGC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
32 23 0.46
33 27 0.54
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTAAAAAA
Found at i:1162905 original size:69 final size:69
Alignment explanation
Indices: 1162794--1162925 Score: 228
Period size: 69 Copynumber: 1.9 Consensus size: 69
1162784 CTCTTAATTT
*
1162794 TCTATGATCTTCGAGTGGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATATCATATG
1 TCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATATCATATG
1162859 ATGC
66 ATGC
* * *
1162863 TCTATGATCTTCGAGTGAAGTGGTTCAGTGATTTAGAAATGATTGTGCTTGATCAATCTCATA
1 TCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATATCATA
1162926 GTTTGAATCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (69 bp):
TCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATATCATATG
ATGC
Found at i:1163020 original size:14 final size:13
Alignment explanation
Indices: 1163003--1163048 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
1162993 TCAATTTTCC
1163003 TTTTTTCT-TTTT
1 TTTTTTCTCTTTT
*
1163015 TATTTTCTCTTTT
1 TTTTTTCTCTTTT
1163028 CTTTTTTCTCTTTT
1 -TTTTTTCTCTTTT
1163042 TTCTTTT
1 TT-TTTT
1163049 TGTTCTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.24
13 6 0.21
14 16 0.55
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTCTCTTTT
Found at i:1163034 original size:21 final size:21
Alignment explanation
Indices: 1162982--1163048 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
1162972 GCATCTTGTC
1162982 TTCTTTTTTCTTCAATTTTC-CTT
1 TTCTTTTTT-TT--ATTTTCTCTT
1163005 TT-TTCTTTTTTATTTTCTCTT
1 TTCTT-TTTTTTATTTTCTCTT
* * *
1163026 TTCTTTTTTCTCTTTTTTCTT
1 TTCTTTTTTTTATTTTCTCTT
1163047 TT
1 TT
1163049 TGTTCTGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 6 0.16
21 20 0.53
22 6 0.16
23 6 0.16
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (21 bp):
TTCTTTTTTTTATTTTCTCTT
Found at i:1164993 original size:22 final size:23
Alignment explanation
Indices: 1164968--1165011 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1164958 AATTAAGTTT
1164968 TAATCTTA-AAACAATTTCAAAA
1 TAATCTTACAAACAATTTCAAAA
* **
1164990 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAACAATTTCAAA
1165012 CCATTTCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATCTTACAAACAATTTCAAAA
Found at i:1170956 original size:21 final size:23
Alignment explanation
Indices: 1170927--1170986 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
1170917 TGGTGCAGAA
* *
1170927 GGAATCGATCCCCCCCTTG-A-G
1 GGAACCGATTCCCCCCTTGAAGG
*
1170948 GGAACCGATTCCCCCTTTGAAGG
1 GGAACCGATTCCCCCCTTGAAGG
1170971 GGAACCGATTCCCCCC
1 GGAACCGATTCCCCCC
1170987 ACAGGGGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 16 0.48
22 1 0.03
23 16 0.48
ACGTcount: A:0.20, C:0.38, G:0.23, T:0.18
Consensus pattern (23 bp):
GGAACCGATTCCCCCCTTGAAGG
Found at i:1170994 original size:21 final size:21
Alignment explanation
Indices: 1170968--1171007 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1170958 CCCCCTTTGA
*
1170968 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
1170989 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
1171008 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:1179203 original size:33 final size:32
Alignment explanation
Indices: 1179127--1179187 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
1179117 TATTTCAGAT
*
1179127 TTTCAGTTCTTTTTTCCCCTCGTCTTTTTCAG
1 TTTCAGTTCTTTTTTCCCCTAGTCTTTTTCAG
1179159 TTTCAGTTCTTTTTTCCCCTAGTCTTTTT
1 TTTCAGTTCTTTTTTCCCCTAGTCTTTTT
1179188 AGTGCTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.07, C:0.26, G:0.08, T:0.59
Consensus pattern (32 bp):
TTTCAGTTCTTTTTTCCCCTAGTCTTTTTCAG
Found at i:1180387 original size:3 final size:3
Alignment explanation
Indices: 1180379--1180419 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
1180369 TTCATTTTAC
1180379 TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1180420 AATACATTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1180404 original size:20 final size:20
Alignment explanation
Indices: 1180379--1180417 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1180369 TTCATTTTAC
1180379 TTATTATTATTATTATTATA
1 TTATTATTATTATTATTATA
1180399 TTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
1180418 TAAATACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTATTATTATTATTATA
Found at i:1184992 original size:72 final size:72
Alignment explanation
Indices: 1184870--1185013 Score: 207
Period size: 72 Copynumber: 2.0 Consensus size: 72
1184860 ATACAATAAA
* * * **
1184870 GCTTGAGTTGTCTCTCTAAAGAAATTGGTTAATCGCCCCGGCTTTATGGATAATATTCAGCTAGT
1 GCTTGAGTTATCCCCCTAAAGAAATTGGTTAATCGCCCCAACTTTATGGATAATATTCAGCTAGT
1184935 CTATTAT
66 CTATTAT
* * * *
1184942 GCTTGAGTTATCCCCCTAAAGTAATTGGTTAATCTCCCTAACTTTTTGGATAATATTCAGCTAGT
1 GCTTGAGTTATCCCCCTAAAGAAATTGGTTAATCGCCCCAACTTTATGGATAATATTCAGCTAGT
1185007 CTATTAT
66 CTATTAT
1185014 ACTATTATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.39
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGAAATTGGTTAATCGCCCCAACTTTATGGATAATATTCAGCTAGT
CTATTAT
Found at i:1189349 original size:116 final size:116
Alignment explanation
Indices: 1189172--1190020 Score: 1231
Period size: 116 Copynumber: 7.3 Consensus size: 116
1189162 TTCTCACATT
* * *
1189172 TGTAAGACCTACAGTGCATGATGTTTTCAAGACCTCAGGGCCATCCATAAGACCTATAGTGCAGG
1 TGTAAGACCTACAGTGCAAGATG--AT-AAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGG
* * *
1189237 ATGGTTTCAAAAAGCCTTCGGGAGTTTTTTCATATTTAAGGCCTTCGGGTCATC
63 ATGTTTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAAAGCCTTCGGGTCATC
* * *
1189291 TGTAAGACCTACAGTGCAAGATGATAAGACCTCACGACCATCCATAAGACTTACAGTGCAGGATG
1 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
* * *
1189356 TTTTCAAAAA-CTTTTCGGGA-TCTTTTTCATATTTAAAGCC-TCTGAGTCATC
66 TTTTCAAAAAGC-CTTCGGGAGT-TTTTTGATATTTAAAGCCTTC-GGGTCATC
*
1189407 TGTAAGACATACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
1 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
* *
1189472 TTTTCAAAAAGCCTTCGGGAGCTATTTTTTATATTTAAAGCCTTCTGGTCATC
66 TTTTCAAAAAGCCTTCGGGAG-T-TTTTTGATATTTAAAGCCTTCGGGTCATC
* * * * *
1189525 TGTAAGACCTACAGTGCAAGATGACAAGACCTCATGGCCATCCATAATACCTATAGTGCAGGATA
1 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
* * *
1189590 TTTTCAAAAAGGCTTCGGGAGGTTTTTGATATTTAAATCC-TCGGGGTCATC
66 TTTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAAAGCCTTC-GGGTCATC
1189641 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
1 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
* * *
1189706 TTTTCAAAAAGCCTTCGGGAGCTATTTTTTATATTTAAAGTCTACGGGTCATC
66 TTTTCAAAAAGCCTTCGGGAG-T-TTTTTGATATTTAAAGCCTTCGGGTCATC
* * * *
1189759 TGTAAGACATACAGTGCAAGATGATAAGACCTGAGGGCCATCCATAAGACCTACAATGCAAGATG
1 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
* *
1189824 TTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTCATC
66 TTTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAAAGCCTTCGGGTCATC
* *
1189875 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGTGCCATCCATAAGACCTACAGTGCATGATG
1 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
* *
1189940 TTTTCAAAAAGCCTTCGGGAGCTTTTTTGATATTTAAA-CCTCCGGGTTATC
66 TTTTCAAAAAGCCTTCGGGAG-TTTTTTGATATTTAAAGCCTTCGGGTCATC
1189991 TGTAAGACCTACAGTGCAAGATGATAAGAC
1 TGTAAGACCTACAGTGCAAGATGATAAGAC
1190021 TTCTGGGCAT
Statistics
Matches: 662, Mismatches: 56, Indels: 27
0.89 0.08 0.04
Matches are distributed among these distances:
115 6 0.01
116 406 0.61
117 17 0.03
118 208 0.31
119 25 0.04
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (116 bp):
TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
TTTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAAAGCCTTCGGGTCATC
Found at i:1189609 original size:234 final size:233
Alignment explanation
Indices: 1189172--1190020 Score: 1299
Period size: 234 Copynumber: 3.6 Consensus size: 233
1189162 TTCTCACATT
* * *
1189172 TGTAAGACCTACAGTGCATGATGTTTTCAAGACCTCAGGGCCATCCATAAGACCTATAGTGCAGG
1 TGTAAGACCTACAGTGCAAGATG--AT-AAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGG
* * *
1189237 ATGGTTTCAAAAAGCCTTCGGGAG-TTTTTTCATATTTAAGGCCTTCGGGTCATCTGTAAGACCT
63 ATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTTATATTTAAAGCCTTCGGGTCATCTGTAAGACCT
* *
1189301 ACAGTGCAAGATGATAAGACCTCACGACCATCCATAAGACTTACAGTGCAGGATGTTTTCAAAAA
128 ACAGTGCAAGATGATAAGACCTCACGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAA
* * * * *
1189366 -CTTTTCGGGATCTTTTTCATATTTAAAGCCTCTGAGTCATC
193 GC-CTTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTCATC
*
1189407 TGTAAGACATACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
1 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
*
1189472 TTTTCAAAAAGCCTTCGGGAGCTATTTTTTATATTTAAAGCCTTCTGGTCATCTGTAAGACCTAC
66 TTTTCAAAAAGCCTTCGGGAGCT-TTTTTTATATTTAAAGCCTTCGGGTCATCTGTAAGACCTAC
* * * * * *
1189537 AGTGCAAGATGACAAGACCTCATGGCCATCCATAATACCTATAGTGCAGGATATTTTCAAAAAGG
130 AGTGCAAGATGATAAGACCTCACGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGC
* * *
1189602 CTTCGGGAGGTTTTTGATATTTAAATCCTCGGGGTCATC
195 CTTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTCATC
1189641 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
1 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
* * *
1189706 TTTTCAAAAAGCCTTCGGGAGCTATTTTTTATATTTAAAGTCTACGGGTCATCTGTAAGACATAC
66 TTTTCAAAAAGCCTTCGGGAGCT-TTTTTTATATTTAAAGCCTTCGGGTCATCTGTAAGACCTAC
* * * *
1189771 AGTGCAAGATGATAAGACCTGAGGGCCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGC
130 AGTGCAAGATGATAAGACCTCACGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGC
1189836 CTTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTCATC
195 CTTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTCATC
* *
1189875 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGTGCCATCCATAAGACCTACAGTGCATGATG
1 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
* * *
1189940 TTTTCAAAAAGCCTTCGGGAGCTTTTTTGATATTTAAA-CCTCCGGGTTATCTGTAAGACCTACA
66 TTTTCAAAAAGCCTTCGGGAGCTTTTTTTATATTTAAAGCCTTCGGGTCATCTGTAAGACCTACA
1190004 GTGCAAGATGATAAGAC
131 GTGCAAGATGATAAGAC
1190021 TTCTGGGCAT
Statistics
Matches: 564, Mismatches: 47, Indels: 9
0.91 0.08 0.01
Matches are distributed among these distances:
232 98 0.17
233 16 0.03
234 429 0.76
235 21 0.04
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (233 bp):
TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATG
TTTTCAAAAAGCCTTCGGGAGCTTTTTTTATATTTAAAGCCTTCGGGTCATCTGTAAGACCTACA
GTGCAAGATGATAAGACCTCACGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCC
TTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTCATC
Found at i:1189671 original size:22 final size:21
Alignment explanation
Indices: 1189643--1189701 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
1189633 GGGTCATCTG
1189643 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* * *
1189665 TAAGACCT-CAGGGC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
1189685 TAAGACCTACAGTGCAG
1 TAAGACCTACAGTGCAG
1189702 GATGTTTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 10 0.34
22 8 0.28
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:1189858 original size:350 final size:346
Alignment explanation
Indices: 1189172--1190020 Score: 1281
Period size: 350 Copynumber: 2.4 Consensus size: 346
1189162 TTCTCACATT
* *
1189172 TGTAAGACCTACAGTGCATGATGTTTTCAAGACCTCAGGGCCATCCATAAGACCTATAGTGCAGG
1 TGTAAGACCTACAGTGCAAGATG---ACAAGACCTCA-GGCCATCCATAAGACCTATAGTGCAGG
* * *
1189237 ATGGTTTCAAAAAGCCTTCGGGAGTTTTTTCATATTTAAGGCCTTCGGGTCATCTGTAAGACCTA
62 ATGTTTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAA-ACC-TCGGGTCATCTGTAAGACCTA
*
1189302 CAGTGCAAGATGATAAGACCTCACGACCATCCATAAGACTTACAGTGCAGGATGTTTTCAAAAAC
125 CAGTGCAAGATGATAAGACCTCACGACCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAC
* *
1189367 TTTTCGGGATCTTTTTCATATTTAAAGCCTCTGAGTCATCTGTAAGACATACAGTGCAAGATGAT
190 TCTTCGGGATATTTTTCATATTTAAAGCCTCTGAGTCATCTGTAAGACATACAGTGCAAGATGAT
* *
1189432 AAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTAT
255 AAGACCTCAGGGCCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCGGGAGC-AT
* * *
1189497 TTTTTATATTTAAAGCCTTCTGGTCATC
319 TTTTGATATTTAAAGCCTCCGGGTCATC
* *
1189525 TGTAAGACCTACAGTGCAAGATGACAAGACCTCATGGCCATCCATAATACCTATAGTGCAGGATA
1 TGTAAGACCTACAGTGCAAGATGACAAGACCTCA-GGCCATCCATAAGACCTATAGTGCAGGATG
* *
1189590 TTTTCAAAAAGGCTTCGGGAGGTTTTTGATATTTAAATCCTCGGGGTCATCTGTAAGACCTACAG
65 TTTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAAA-CCTC-GGGTCATCTGTAAGACCTACAG
* *
1189655 TGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGC-C
128 TGCAAGATGATAAGACCTCACGACCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAA-CTC
* * *
1189719 TTCGGGAGCTATTTTTTATATTTAAAGTCTAC-GGGTCATCTGTAAGACATACAGTGCAAGATGA
192 TTCGGGA--TATTTTTCATATTTAAAGCCT-CTGAGTCATCTGTAAGACATACAGTGCAAGATGA
*
1189783 TAAGACCTGAGGGCCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCGGGAGC-T
254 TAAGACCTCAGGGCCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCGGGAGCAT
1189847 TTTTGATATTTAAAGCCTCCGGGTCATC
319 TTTTGATATTTAAAGCCTCCGGGTCATC
* * *
1189875 TGTAAGACCTACAGTGCAAGATGATAAGACCTCAGTGCCATCCATAAGACCTACAGTGCATGATG
1 TGTAAGACCTACAGTGCAAGATGACAAGACCTCAG-GCCATCCATAAGACCTATAGTGCAGGATG
*
1189940 TTTTCAAAAAGCCTTCGGGAGCTTTTTTGATATTTAAACCTCCGGGTTATCTGTAAGACCTACAG
65 TTTTCAAAAAGCCTTCGGGAG-TTTTTTGATATTTAAACCT-CGGGTCATCTGTAAGACCTACAG
1190005 TGCAAGATGATAAGAC
128 TGCAAGATGATAAGAC
1190021 TTCTGGGCAT
Statistics
Matches: 455, Mismatches: 32, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
349 3 0.01
350 303 0.67
351 17 0.04
352 109 0.24
353 23 0.05
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (346 bp):
TGTAAGACCTACAGTGCAAGATGACAAGACCTCAGGCCATCCATAAGACCTATAGTGCAGGATGT
TTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAAACCTCGGGTCATCTGTAAGACCTACAGTGC
AAGATGATAAGACCTCACGACCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAACTCTTCG
GGATATTTTTCATATTTAAAGCCTCTGAGTCATCTGTAAGACATACAGTGCAAGATGATAAGACC
TCAGGGCCATCCATAAGACCTACAATGCAAGATGTTTTCAAAAAGCCTTCGGGAGCATTTTTGAT
ATTTAAAGCCTCCGGGTCATC
Found at i:1201119 original size:2 final size:2
Alignment explanation
Indices: 1201112--1201141 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1201102 ACATTCTTAT
1201112 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
1201142 ATTTTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1203936 original size:26 final size:24
Alignment explanation
Indices: 1203901--1203992 Score: 91
Period size: 24 Copynumber: 3.7 Consensus size: 24
1203891 TTTCAAAAAC
1203901 TTCATCAAACTTTTTTCAAAATTTCT
1 TTCATCAAACTTTTTT-AAAA-TTCT
*
1203927 TTCATCAAACATTATTTAAAATTCT
1 TTCATCAAAC-TTTTTTAAAATTCT
*
1203952 TTCATAAAGAAC--TTTTAAAACTTC-
1 TTCAT-CA-AACTTTTTTAAAA-TTCT
1203976 TTCATCAAACTTTTTTA
1 TTCATCAAACTTTTTTA
1203993 CCTTTTGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
22 3 0.05
23 1 0.02
24 17 0.30
25 12 0.21
26 15 0.27
27 8 0.14
ACGTcount: A:0.36, C:0.17, G:0.01, T:0.46
Consensus pattern (24 bp):
TTCATCAAACTTTTTTAAAATTCT
Found at i:1204363 original size:30 final size:30
Alignment explanation
Indices: 1204316--1204391 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
1204306 CGGCTAAGCA
1204316 CCAAATAGTAC-AGGACTTGGCCAC-CAATG
1 CCAAATAGTACAAGGACTTGGCCACTC-ATG
1204345 CCAAATAGTACAAGGACTTGGCCACTCATG
1 CCAAATAGTACAAGGACTTGGCCACTCATG
** *
1204375 ATAAATAGTACATGGAC
1 CCAAATAGTACAAGGAC
1204392 CAAGGCCATC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.26
30 30 0.71
31 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (30 bp):
CCAAATAGTACAAGGACTTGGCCACTCATG
Found at i:1206175 original size:3 final size:3
Alignment explanation
Indices: 1206167--1206216 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
1206157 TTTTAATCCG
*
1206167 ATT ATT ATT ATT ATT ATTT ATT AAT ATT A-T ATT ATTT ATT -TT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
1206212 -TT ATT
1 ATT ATT
1206217 TACAAGCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 6 0.15
3 28 0.70
4 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:1206178 original size:6 final size:6
Alignment explanation
Indices: 1206167--1206216 Score: 52
Period size: 5 Copynumber: 8.5 Consensus size: 6
1206157 TTTTAATCCG
*
1206167 ATTATT ATTATT ATTATTT ATTAAT ATTA-T ATTATTT ATT-TT ATT-TT
1 ATTATT ATTATT ATTA-TT ATTATT ATTATT ATTA-TT ATTATT ATTATT
1206214 ATT
1 ATT
1206217 TACAAGCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 15 0.38
6 15 0.38
7 10 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTATT
Found at i:1206216 original size:22 final size:22
Alignment explanation
Indices: 1206167--1206216 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1206157 TTTTAATCCG
1206167 ATTATTATTATTATTATTTATT
1 ATTATTATTATTATTATTTATT
*
1206189 AATATTA-TATTATTTATTTTATT
1 ATTATTATTATTA-TTA-TTTATT
1206212 -TTATT
1 ATTATT
1206217 TACAAGCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 5 0.21
22 13 0.54
23 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTATTATTATTATTATTTATT
Found at i:1207822 original size:4 final size:4
Alignment explanation
Indices: 1207813--1207869 Score: 51
Period size: 4 Copynumber: 13.2 Consensus size: 4
1207803 AACATTCCTT
* * *
1207813 TTTA TTTA TTTCA TGTA TTTA TTTA TTTA TCTTTG TTTA GTTA TTTTA
1 TTTA TTTA TTT-A TTTA TTTA TTTA TTTA --TTTA TTTA TTTA -TTTA
1207861 TTTA TTTA T
1 TTTA TTTA T
1207870 CCATGTTTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
4 34 0.79
5 6 0.14
6 3 0.07
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:1207861 original size:27 final size:28
Alignment explanation
Indices: 1207830--1207891 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
1207820 ATTTCATGTA
**
1207830 TTTATTTATTTATCTTTGTTTAG-TTAT
1 TTTATTTATTTATCCATGTTTAGTTTAT
1207857 TTTATTTATTTATCCATGTTTAGTTTAT
1 TTTATTTATTTATCCATGTTTAGTTTAT
*
1207885 TATATTT
1 TTTATTT
1207892 TATTGATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.21, C:0.05, G:0.06, T:0.68
Consensus pattern (28 bp):
TTTATTTATTTATCCATGTTTAGTTTAT
Found at i:1207866 original size:31 final size:31
Alignment explanation
Indices: 1207828--1207932 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 31
1207818 TTATTTCATG
1207828 TATTTATTTATTTATCTTTGTTTAGTTATTT
1 TATTTATTTATTTATCTTTGTTTAGTTATTT
** * *
1207859 TATTTATTTATCCATGTTTAGTTTATTATATTT
1 TATTTATTTATTTATCTTT-GTTTAGT-TATTT
*
1207892 TATTGATATTTCATTTATCTTT-TATATGTTATTT
1 TATT--TATTT-ATTTATCTTTGTTTA-GTTATTT
1207926 T-TTTATT
1 TATTTATT
1207933 GTTGCATTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
31 20 0.34
32 6 0.10
33 11 0.19
34 9 0.15
35 6 0.10
36 7 0.12
ACGTcount: A:0.22, C:0.05, G:0.06, T:0.68
Consensus pattern (31 bp):
TATTTATTTATTTATCTTTGTTTAGTTATTT
Found at i:1215214 original size:14 final size:15
Alignment explanation
Indices: 1215187--1215219 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1215177 GATTTTATGT
*
1215187 TTATCTTTAGTATAA
1 TTATCTTTAATATAA
1215202 TTAT-TTTAATATAA
1 TTATCTTTAATATAA
1215216 TTAT
1 TTAT
1215220 AAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (15 bp):
TTATCTTTAATATAA
Found at i:1217493 original size:20 final size:20
Alignment explanation
Indices: 1217464--1217501 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1217454 ATTGGGAATC
* *
1217464 GATTTTCAGGTTTTCCAACT
1 GATTTACAGGTCTTCCAACT
1217484 GATTTACAGGTCTTCCAA
1 GATTTACAGGTCTTCCAA
1217502 ACAAGTCAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (20 bp):
GATTTACAGGTCTTCCAACT
Found at i:1221880 original size:20 final size:20
Alignment explanation
Indices: 1221855--1221896 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1221845 GACGATTAGA
1221855 AACCAATTT-TCAGGTCTTCC
1 AACCAATTTAT-AGGTCTTCC
1221875 AACCAATTTATAGGTCTTCC
1 AACCAATTTATAGGTCTTCC
1221895 AA
1 AA
1221897 ACAAGTCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (20 bp):
AACCAATTTATAGGTCTTCC
Found at i:1224014 original size:23 final size:23
Alignment explanation
Indices: 1223980--1224023 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1223970 TATCTAAATT
1223980 TAATACAAAAATAACTTATTTAA
1 TAATACAAAAATAACTTATTTAA
*
1224003 TAATACACAAATAACTTATTT
1 TAATACAAAAATAACTTATTT
1224024 TTATAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (23 bp):
TAATACAAAAATAACTTATTTAA
Found at i:1228834 original size:81 final size:81
Alignment explanation
Indices: 1228728--1229211 Score: 652
Period size: 81 Copynumber: 6.0 Consensus size: 81
1228718 AGACATTTAG
* * * *
1228728 TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGCCAAAGGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* ** *
1228793 ACAGTTAGGCTTTTAG
66 ACAGCTAGGCCATTAA
* * * * *
1228809 GCTTTTACTCAAAGGTATTTAACCTTTCATCTACCTGGCATAATTTACACCATTCTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1228874 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
1228890 TCTTTTACTCAAAGGTATTTAACCTTTAATCTAACT-ACATAATTGACACCTTTATATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1228954 ACAGCTAGGCCATTAT
66 ACAGCTAGGCCATTAA
* *
1228970 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTG--ACCTTTCTGTCGAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1229033 ACA-CTAGGCCTTTAA
66 ACAGCTAGGCCATTAA
* * * *
1229048 TCTTTCACTCAAAGGTATTTAACCTTTCATCTAACAGGCATAATTGACATCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1229113 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
1229129 ACTTTTACTCAAAGGTATTTAACATTTCATATAACTAGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
1229194 ACATCTAAGCCATTAA
66 ACAGCTAGGCCATTAA
1229210 TC
1 TC
1229212 ACATTCCAGA
Statistics
Matches: 351, Mismatches: 48, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
78 53 0.15
79 17 0.05
80 89 0.25
81 192 0.55
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:1229150 original size:239 final size:242
Alignment explanation
Indices: 1228728--1229208 Score: 698
Period size: 239 Copynumber: 2.0 Consensus size: 242
1228718 AGACATTTAG
*
1228728 TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGCCAAAGGC
1 TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGA-ACCTTTCTGCCAAAGGC
* * * * * * *
1228793 ACAGTTAGGCTTTTAGGCTTTTACTCAAAGGTATTTAACCTTTCATCTACCTGGCATAATTTACA
65 ACAGCTAGGCCTTTAAGCTTTCACTCAAAGGTATTTAACCTTTCATCTAACAGGCATAATTGACA
* * * * *
1228858 CCATTCTTTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTAATCTA
130 CCATTCTATCAAATGCACAACTAGGCCATTAAACTTTTACTCAAAGGTATTTAACATTTAATATA
*
1228923 ACTA-CATAATTGACACCTTTATATCAAATGCACAGCTAGGCCATTAT
195 ACTAGCATAATTGACACCTTTATATCAAATGCACAGCTAAGCCATTAT
* * * * *
1228970 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTG-ACCTTTCTGTCGAATGCA
1 TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAACCTTTCTGCCAAAGGCA
* *
1229034 CA-CTAGGCCTTTAATCTTTCACTCAAAGGTATTTAACCTTTCATCTAACAGGCATAATTGACAT
66 CAGCTAGGCCTTTAAGCTTTCACTCAAAGGTATTTAACCTTTCATCTAACAGGCATAATTGACAC
* *
1229098 CTTTCTATCAAATGCACAACTAGGCCATTAAACTTTTACTCAAAGGTATTTAACATTTCATATAA
131 CATTCTATCAAATGCACAACTAGGCCATTAAACTTTTACTCAAAGGTATTTAACATTTAATATAA
* * *
1229163 CTAGCATAATTGACACCTTTCTGTCAAATGCACATCTAAGCCATTA
196 CTAGCATAATTGACACCTTTATATCAAATGCACAGCTAAGCCATTA
1229209 ATCACATTCC
Statistics
Matches: 212, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
239 114 0.54
240 55 0.26
242 43 0.20
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (242 bp):
TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAACCTTTCTGCCAAAGGCA
CAGCTAGGCCTTTAAGCTTTCACTCAAAGGTATTTAACCTTTCATCTAACAGGCATAATTGACAC
CATTCTATCAAATGCACAACTAGGCCATTAAACTTTTACTCAAAGGTATTTAACATTTAATATAA
CTAGCATAATTGACACCTTTATATCAAATGCACAGCTAAGCCATTAT
Found at i:1230027 original size:2 final size:2
Alignment explanation
Indices: 1230020--1230047 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1230010 TGATTTATTC
1230020 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
1230048 CATTTACAGT
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:1231794 original size:53 final size:52
Alignment explanation
Indices: 1231735--1231846 Score: 215
Period size: 53 Copynumber: 2.1 Consensus size: 52
1231725 CTCAAATTTG
1231735 ACCGAAACACAAAAAACATAATCGAACCAAAACAAACCCGAATTTTAGCCAA
1 ACCGAAACACAAAAAACATAATCGAACCAAAACAAACCCGAATTTTAGCCAA
1231787 ACCCGAAACACAAAAAACATAATCGAACCAAAACAAACCCGAATTTTAGCCAA
1 A-CCGAAACACAAAAAACATAATCGAACCAAAACAAACCCGAATTTTAGCCAA
1231840 ACCGAAA
1 ACCGAAA
1231847 GCAATCGAAC
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 7 0.12
53 52 0.88
ACGTcount: A:0.54, C:0.28, G:0.08, T:0.11
Consensus pattern (52 bp):
ACCGAAACACAAAAAACATAATCGAACCAAAACAAACCCGAATTTTAGCCAA
Found at i:1232191 original size:60 final size:60
Alignment explanation
Indices: 1232068--1232228 Score: 166
Period size: 60 Copynumber: 2.7 Consensus size: 60
1232058 CCCTCATTTC
* * * * * *
1232068 AAATTAGTCCCTAAGCTTTTAAACATTTTAATTTCATCCTTAAACTATGACTATTATTCT
1 AAATTAGTCCCTAAACTTTTGAACATTTCATTTTCATCCTTAAACCATGACTATCATTCT
* *
1232128 AAATTAGTCCTTAAACTTTTGAACATTTCATTTTCATCCTTAATCCATGATCT-TCA-TCTT
1 AAATTAGTCCCTAAACTTTTGAACATTTCATTTTCATCCTTAAACCATGA-CTATCATTC-T
* * *
1232188 AAATTGGTCCCCAAACTTTATGAATATTTCAATTTT-ATCCT
1 AAATTAGTCCCTAAACTTT-TGAACATTTC-ATTTTCATCCT
1232229 AAATTATTCT
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
59 2 0.02
60 62 0.73
61 16 0.19
62 5 0.06
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (60 bp):
AAATTAGTCCCTAAACTTTTGAACATTTCATTTTCATCCTTAAACCATGACTATCATTCT
Found at i:1234226 original size:163 final size:160
Alignment explanation
Indices: 1233959--1234615 Score: 716
Period size: 163 Copynumber: 4.0 Consensus size: 160
1233949 AGACATTTAG
* * * * * * * *
1233959 TCTTTTACCCAAAGGTATTTAAC-TTTCATCTAACTGGCATGATTGACACCATTATGCAAAAGGC
1 TCTTTTA-CTAAAAGTATTTAACATTTCATCTAACTGACATAATTGACACCTTTTTTC-AAATGC
** ** * *
1234023 ACAATTAGGCTTTTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACA
64 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTAATTAACCTTTCATCTAACTAGCATAATTGACA
* * *
1234088 CTTTTCTGTCAAAATGCAGAGCTAGGCCATTAA
129 CCTTTCTGTC-AAATGCACAACTAGGCCATTAA
* *
1234121 TCTTTTACTAAAAGATATTTAACTTTTCAT-TGAACTGACATAATTGACACCTTTCTGTCAAATG
1 TCTTTTACTAAAAG-TATTTAACATTTCATCT-AACTGACATAATTGACACCTTT-TTTCAAATG
* ** * *
1234185 AACAGCTAGGCCATTAATGATTTACTCAAAGGTAATTAACCTTTCATCTAACTGGCATAATTGAT
63 CACAGCTAGGCCATTAATCTTTTACTCAAAGGTAATTAACCTTTCATCTAACTAGCATAATTGAC
*
1234250 ACCTTTATGTCAAATGCACAACT-GTGCCATTAA
128 ACCTTTCTGTCAAATGCACAACTAG-GCCATTAA
* * * *
1234283 TCTTTTACTCAAAGGTGTTT-ACCTTTCATCTAACTGGC-TAATTGACA-CTTTTTTCCAAATGC
1 TCTTTTACT-AAAAGTATTTAACATTTCATCTAACTGACATAATTGACACCTTTTTT-CAAATGC
* *
1234345 ACAACTAGGCCATTAATCTTTTACTCGAAGGTATTTATTTAACCTTTCATCTAACTAGCATAATT
64 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTA---A-TTAACCTTTCATCTAACTAGCATAATT
* * * * *
1234410 GACACCTTTCTGACAAATGAATAGCTAGGACATTAA
125 GACACCTTTCTGTCAAATGCACAACTAGGCCATTAA
* *
1234446 TGTTTTACTCAAATGTATTTAACATTTCATCTAACT-AGCATAATTGACACCTTTTTTTCAAATG
1 TCTTTTACT-AAAAGTATTTAACATTTCATCTAACTGA-CATAATTGACACC-TTTTTTCAAATG
* * *
1234510 CACAGCTATGCCATTAATCTTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGA
63 CACAGCTAGGCCATTAATC-TTTTACTCAAAGGTAATTAACCTTTCATCTAACTAGCATAATTGA
* * *
1234575 CACTTTTCTGCCAAATGGACAACTAGGCCATTAA
127 CACCTTTCTGTCAAATGCACAACTAGGCCATTAA
1234609 TCTTTTA
1 TCTTTTA
1234616 TTTTAGAACA
Statistics
Matches: 417, Mismatches: 59, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
158 2 0.00
159 39 0.09
160 9 0.02
161 20 0.05
162 49 0.12
163 228 0.55
164 17 0.04
165 9 0.02
166 24 0.06
167 20 0.05
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (160 bp):
TCTTTTACTAAAAGTATTTAACATTTCATCTAACTGACATAATTGACACCTTTTTTCAAATGCAC
AGCTAGGCCATTAATCTTTTACTCAAAGGTAATTAACCTTTCATCTAACTAGCATAATTGACACC
TTTCTGTCAAATGCACAACTAGGCCATTAA
Found at i:1234230 original size:81 final size:81
Alignment explanation
Indices: 1233959--1234615 Score: 724
Period size: 81 Copynumber: 8.1 Consensus size: 81
1233949 AGACATTTAG
* * * * * *
1233959 TCTTTTACCCAAAGGTATTTAA-CTTTCATCTAACTGGCATGATTGACACCATTATG-CAAAAGG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTGTC-AAATG
** ** *
1234022 CACAATTAGGCTTTTAG
65 CACAGCTAGGCCATTAA
*
1234039 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-AGCATAATTGACACTTTTCTGTCAAAAT
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGA-CATAATTGACACCTTTCTGTC-AAAT
*
1234103 GCAGAGCTAGGCCATTAA
64 GCACAGCTAGGCCATTAA
* * *
1234121 TCTTTTACTAAAAGATATTTAACTTTTCAT-TGAACTGACATAATTGACACCTTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCT-AACTGACATAATTGACACCTTTCTGTCAAATG
*
1234185 AACAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
** * * * *
1234202 TGATTTACTCAAAGGTAATTAACCTTTCATCTAACTGGCATAATTGATACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGC
*
1234267 ACAACT-GTGCCATTAA
66 ACAGCTAG-GCCATTAA
* * *
1234283 TCTTTTACTCAAAGGTGTTT-ACCTTTCATCTAACTGGC-TAATTGACA-CTTT-TTTCCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTGT-CAAATG
*
1234344 CACAACTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* *
1234361 TCTTTTACTCGAAGGTATTTATTTAACCTTTCATCTAACT-AGCATAATTGACACCTTTCTGACA
1 TCTTTTACTCAAAGG----TATTTAACCTTTCATCTAACTGA-CATAATTGACACCTTTCTGTCA
* * *
1234425 AATGAATAGCTAGGACATTAA
61 AATGCACAGCTAGGCCATTAA
* * * * *
1234446 TGTTTTACTCAAATGTATTTAACATTTCATCTAACT-AGCATAATTGACACCTTTTTTTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGA-CATAATTGACACCTTTCTGTCAAATG
*
1234510 CACAGCTATGCCATTAA
65 CACAGCTAGGCCATTAA
* * *
1234527 TCTTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATG
1 TC-TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATG
* *
1234592 GACAACTAGGCCATTAA
65 CACAGCTAGGCCATTAA
1234609 TCTTTTA
1 TCTTTTA
1234616 TTTTAGAACA
Statistics
Matches: 490, Mismatches: 67, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
77 2 0.00
78 39 0.08
79 9 0.02
80 40 0.08
81 195 0.40
82 143 0.29
83 17 0.03
84 9 0.02
85 35 0.07
86 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:1234386 original size:244 final size:243
Alignment explanation
Indices: 1233962--1234615 Score: 883
Period size: 244 Copynumber: 2.7 Consensus size: 243
1233952 CATTTAGTCT
* * * *
1233962 TTTACCCAAAGGTATTTAA-CTTTCATCTAACTGGCATGATTGACACCATTATG-CAAAAGGCAC
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTC-AAATGCAC
* ** * *
1234025 AATTAG-GCTTTTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACAC
65 AACT-GTGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC
* * * *
1234089 TTTTCTGTCAAAATGCAGAGCTAGGCCATTAATCTTTTACTAAAAGATATTTAACTTTTCAT-TG
129 TTTTCT-TCCAAATGCACAACTAGGCCATTAATCTTTTACTAAAAGATATTTAACCTTTCATCT-
* *
1234153 AACT-GACATAATTGACACCTTTCTGTCAAATGAACAGCTAGGCCATTAATGA
192 AACTAG-CATAATTGACACCTTTCTGACAAATGAACAGCTAGGACATTAATGA
* *
1234205 TTTACTCAAAGGTAATTAACCTTTCATCTAACTGGCATAATTGATACCTTTATGTCAAATGCACA
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACA
*
1234270 ACTGTGCCATTAATCTTTTACTCAAAGGTGTTT-ACCTTTCATCTAACTGGC-TAATTGACACTT
66 ACTGTGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTT
* *
1234333 TT-TTCCAAATGCACAACTAGGCCATTAATCTTTTACTCGAAGGTATTTATTTAACCTTTCATCT
131 TTCTTCCAAATGCACAACTAGGCCATTAATCTTTTACT-AAAAG-A--TATTTAACCTTTCATCT
* *
1234397 AACTAGCATAATTGACACCTTTCTGACAAATGAATAGCTAGGACATTAATGT
192 AACTAGCATAATTGACACCTTTCTGACAAATGAACAGCTAGGACATTAATGA
* * * * *
1234449 TTTACTCAAATGTATTTAACATTTCATCTAACTAGCATAATTGACACCTTTTTTTCAAATGCACA
1 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACA
* *
1234514 GCTATGCCATTAATCTTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACT
66 ACTGTGCCATTAATC-TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACT
* *
1234579 TTTCTGCCAAATGGACAACTAGGCCATTAATCTTTTA
130 TTTCTTCCAAATGCACAACTAGGCCATTAATCTTTTA
1234616 TTTTAGAACA
Statistics
Matches: 364, Mismatches: 34, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
240 31 0.09
241 4 0.01
242 15 0.04
243 35 0.10
244 196 0.54
245 20 0.05
246 18 0.05
247 14 0.04
248 31 0.09
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (243 bp):
TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGCACA
ACTGTGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTT
TTCTTCCAAATGCACAACTAGGCCATTAATCTTTTACTAAAAGATATTTAACCTTTCATCTAACT
AGCATAATTGACACCTTTCTGACAAATGAACAGCTAGGACATTAATGA
Found at i:1234784 original size:55 final size:55
Alignment explanation
Indices: 1234701--1234916 Score: 333
Period size: 55 Copynumber: 3.9 Consensus size: 55
1234691 TTGCACCAGT
* * * * *
1234701 AGTGCCAATACGGTAATACATAAACTTATTATGAATTTCTTAGTTTTACACACAC
1 AGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
* *
1234756 AGTACCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGTACACAC
1 AGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
* *
1234811 AATGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTTGTTTTGCACACAC
1 AGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
* *
1234866 AGTGCCTATACAGAAATTCATAAACTTATTATGATTTTCTTAGTTTTGCAC
1 AGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCAC
1234917 GCATACATAG
Statistics
Matches: 146, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 146 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (55 bp):
AGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
Found at i:1237551 original size:81 final size:81
Alignment explanation
Indices: 1237434--1237764 Score: 473
Period size: 81 Copynumber: 4.1 Consensus size: 81
1237424 AGGCTTTTAG
* * *
1237434 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTTTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1237499 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * *
1237515 TCTTTTACTCAAAGGTATTTAACCTTTCATTTAACTGGTATAATTGACACCTTTCTGTCAAATGA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
1237580 ACAGCTATGCCATTAA
66 ACAACTAGGCCATTAA
* * *
1237596 TGTTTTACTCAAAGGTCTTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
1237661 ACATCTATGCCATTAA
66 ACAACTAGGCCATTAA
** * * **
1237677 TCTTTTACTCAAAGCAATTTAACCTTTCATCTAACTGGCATAATTTACACTTTTCTACCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1237742 ACTACTAGGCCATTAA
66 ACAACTAGGCCATTAA
*
1237758 CCTTTTA
1 TCTTTTA
1237765 TTTTAGAACA
Statistics
Matches: 222, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 222 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCCATTAA
Found at i:1237927 original size:55 final size:55
Alignment explanation
Indices: 1237850--1238075 Score: 303
Period size: 55 Copynumber: 4.1 Consensus size: 55
1237840 TTGCACCCGT
* * *
1237850 AGTGCCAATAC-GATAATACATAAACTTATTATGAATTTCTTAGTTTTGTACACAC
1 AGTGCCCATACAGA-AATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
*
1237905 AGTGCCCATATAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
1 AGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
* * * *
1237960 AATGCCCATACAAAAATTCATAAACTTATTATAAATTTCATAGTTTTGCACACAC
1 AGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
* ** * *
1238015 AGCGCTAATACAGAAATTCATAAACTTATTATGAATTTCTTA-TATTTGCACGCAT
1 AGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGT-TTTGCACACAC
1238070 AGTGCC
1 AGTGCC
1238076 ATTTTATAAT
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
54 1 0.01
55 146 0.98
56 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (55 bp):
AGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
Found at i:1242137 original size:46 final size:46
Alignment explanation
Indices: 1242016--1242139 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 46
1242006 AGTTATGTAT
* *
1242016 TTTCATTTGTGGCATC-CTTTCAT-TCTAATTATGGACTGTTATATA
1 TTTCATTTATGGCATCACTTTCATATC-AATTATGGACTGTTATACA
* * * *
1242061 TATTCATTTATGGCATTA-TTCCATACCAATTATGTA-TGGTTATACA
1 T-TTCATTTATGGCATCACTTTCATATCAATTATGGACT-GTTATACA
1242107 TTTCCATTTATGGCA-CACTTTCATATCAATTAT
1 TTT-CATTTATGGCATCACTTTCATATCAATTAT
1242140 CACGATTAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
45 5 0.08
46 58 0.91
47 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (46 bp):
TTTCATTTATGGCATCACTTTCATATCAATTATGGACTGTTATACA
Found at i:1242310 original size:81 final size:81
Alignment explanation
Indices: 1242216--1243593 Score: 1899
Period size: 81 Copynumber: 17.1 Consensus size: 81
1242206 AGACATTTAG
* * ** *
1242216 TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTACCAAAGGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* ** *
1242281 ACAGTTAGGCTTTTAG
66 ACAGCTAGGCCATTAA
* *
1242297 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1242362 ATAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
1242378 ACTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTGTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1242443 ACAAG-TAGGTCATTAA
66 AC-AGCTAGGCCATTAA
* * * * * *
1242459 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGTATAATTGAGACATTTATATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
** * *
1242524 ACAATTATGCCATCAA
66 ACAGCTAGGCCATTAA
* * * ** *
1242540 TCTTTCACTCAAAGGTGTTTAACCTTTCATATAACTCACATAATTGACACCTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
1242605 ACAACTAGGTCATTAA
66 ACAGCTAGGCCATTAA
* *
1242621 T-TATTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATAAAATG
1 TCT-TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATG
* *
1242685 TACAGCTAGGCCATTCA
65 CACAGCTAGGCCATTAA
1242702 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1242767 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* **
1242783 TATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1242848 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
** * * * * *
1242864 TCTTTTACTTGAAGGTATTTAACCTTTCATCTAACTAGCGTAATTGACACCTTTTTTTCAATTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* * *
1242929 ACAACTAGCCCTTTAA
66 ACAGCTAGGCCATTAA
* * * *
1242945 TGTTTTACTCAAAGGTATTTAACCTTTCATCTAGCTGGCATAATTAACACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1243010 ACAGCTAGACCATTAA
66 ACAGCTAGGCCATTAA
* * * *
1243026 TCTTTTGCTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTAACACCTTTCTGTCGAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1243091 ACAGCTAGGCCAGTAA
66 ACAGCTAGGCCATTAA
**
1243107 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACATATTT-TGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1243171 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
** * * *
1243187 TCTTTTACTTGAAGGTATTTAACCTTTCATCTAACTGGCGTAATTGACACCTTT-TGTTAATTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
1243251 ACAGCTAGCCCTTTAA
66 ACAGCTAGGCCATTAA
* *
1243267 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAATGGCATAATTGACACCTTTCTGTCTAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
1243332 ACAACTAGACCATTAA
66 ACAGCTAGGCCATTAA
* * * * *
1243348 TCTTTTAGTCAAAGGTATTTAACCTTTCATCTAACT-GTATAATTGACGCATTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
1243412 ACAGCTAGGCCGTTAA
66 ACAGCTAGGCCATTAA
* * * *
1243428 TCTTTTACTCATAGGTATTTAACCTTTCA--TAGCTGGCATAATTAACACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
**
1243491 ACAGCTAAACCATTAA
66 ACAGCTAGGCCATTAA
* *
1243507 TCTTTTGCTCAAA-GTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1243571 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
1243587 TCTTTTA
1 TCTTTTA
1243594 TTTTAGAACA
Statistics
Matches: 1139, Mismatches: 150, Indels: 17
0.87 0.11 0.01
Matches are distributed among these distances:
78 19 0.02
79 46 0.04
80 262 0.23
81 809 0.71
82 3 0.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:1243849 original size:55 final size:55
Alignment explanation
Indices: 1243697--1243839 Score: 243
Period size: 55 Copynumber: 2.6 Consensus size: 55
1243687 TATTGTAATA
* *
1243697 CATAAACTTATTATGAATTTCTTAGTTTTGCATACACAGTGCCCATACAAAAATT
1 CATAAACTTATTATGAATTTCTTAGTTTTGCACACTCAGTGCCCATACAAAAATT
*
1243752 CATAAACTTATTATGAATTTCTTAGTTTTG-ATCACTCAGTGCCCATACATAAATT
1 CATAAACTTATTATGAATTTCTTAGTTTTGCA-CACTCAGTGCCCATACAAAAATT
1243807 CATAAACTTATTATGAATTTCTTAGTTTTGCAC
1 CATAAACTTATTATGAATTTCTTAGTTTTGCAC
1243840 GCGTCGTGCC
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
54 1 0.01
55 81 0.98
56 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (55 bp):
CATAAACTTATTATGAATTTCTTAGTTTTGCACACTCAGTGCCCATACAAAAATT
Found at i:1244955 original size:10 final size:10
Alignment explanation
Indices: 1244940--1244966 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1244930 TCCAAATCAC
1244940 TTATCATCTT
1 TTATCATCTT
1244950 TTATCATCTT
1 TTATCATCTT
1244960 TTATCAT
1 TTATCAT
1244967 TTAATCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (10 bp):
TTATCATCTT
Found at i:1245445 original size:19 final size:19
Alignment explanation
Indices: 1245421--1245463 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1245411 AACTATTGAC
*
1245421 ACCAACCTGAGGTATCTAT
1 ACCAACCTGAGGTATCGAT
*
1245440 ACCAACTTGAGGTATCGAT
1 ACCAACCTGAGGTATCGAT
1245459 ACCAA
1 ACCAA
1245464 AATAGGCTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (19 bp):
ACCAACCTGAGGTATCGAT
Found at i:1245747 original size:20 final size:21
Alignment explanation
Indices: 1245724--1245773 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
1245714 GCCCTTTGAT
1245724 TATCGATACCCTAAGAA-TAA
1 TATCGATACCCTAAGAACTAA
* * * *
1245744 TATCGGTATCCTATGAACTGA
1 TATCGATACCCTAAGAACTAA
1245765 TATCGATAC
1 TATCGATAC
1245774 TCTCAGATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (21 bp):
TATCGATACCCTAAGAACTAA
Found at i:1251389 original size:81 final size:81
Alignment explanation
Indices: 1251244--1252035 Score: 1002
Period size: 81 Copynumber: 9.8 Consensus size: 81
1251234 ATTTTGCCTC
* * * * *
1251244 TCATCTAACTTGCATGATTGACACTTTTCTGCCAAAATCCACACCTAGGCCATTAATCTTTTACT
1 TCATCTAACTGGCATAATTGACACCTTTCTGCC-AAATGCACAGCTAGGCCATTAATCTTTTACT
* *
1251309 CAATGGTACATAACTGT
65 CAACGGTACTTAACTGT
* * * * ** *
1251326 TCATCTAAATGGCATAATTGACATCTTTCTACAAAATGCACAGCTAAACAATTAATCTTTTACTC
1 TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTC
* *
1251391 AATGGTACTTAACCGT
66 AACGGTACTTAACTGT
* * * *
1251407 TCATCTATCTGGCATAATTGACACCTTTCTGCCAAATACACAACTAGGCCATTAATATTTTACTC
1 TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTC
*
1251472 AACGATACTTAA-TCGT
66 AACGGTACTTAACT-GT
*
1251488 TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACTGCTAGGCCATTAATCTTTTACTC
1 TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTC
*
1251553 AACGATACTTAACTGT
66 AACGGTACTTAACTGT
* * *
1251569 TCATCTAACTGGCATAATTGACACCTTTTTGCCAAATGCAGAACTAGGCCATTAATCTTTTACTC
1 TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTC
* **
1251634 AAC-GTACCTAACCAT
66 AACGGTACTTAACTGT
* * * *
1251649 TCATCTAACTGGCATAATTGATACTTTTCTGCCAAATGCACAACTAGGCCATTAATATTTTACTC
1 TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTC
* *
1251714 AACGTTACTTAACCGT
66 AACGGTACTTAACTGT
* * *
1251730 TCATCTAACTTGCATAATTGACACTTTTCTGCCAAATGTACAGCTAGGCCATTAATCTTTTACTC
1 TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTC
*
1251795 AAAGGTACTTAACCT-T
66 AACGGTACTTAA-CTGT
* *
1251811 TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGACCATTAAT-TCTTTAGT
1 TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCT-TTTACT
*
1251875 CAACGATACTTAA-TCGT
65 CAACGGTACTTAACT-GT
* * ** * *
1251892 TCATCGAACTGACATAATTGACATATTTCTGCCAAATACACAGCTAGGCCATTAATATTTTACTC
1 TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTC
*
1251957 AACGCTACTTAA-TCGT
66 AACGGTACTTAACT-GT
* * * *
1251973 TCAACTAACTGGCATAATTGACACATTTTCTGCCAAATGCACAACTAGGCCATTATTCTTTTA
1 TCATCTAACTGGCATAATTGACAC-CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTA
1252036 TTTTAAAACA
Statistics
Matches: 620, Mismatches: 81, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
79 1 0.00
80 72 0.12
81 485 0.78
82 62 0.10
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (81 bp):
TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTC
AACGGTACTTAACTGT
Found at i:1252653 original size:19 final size:21
Alignment explanation
Indices: 1252616--1252665 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 21
1252606 TGGCTAAATA
*
1252616 GTATCGATACTACTATATTATG
1 GTATCGATACTAC-ATATTACG
1252638 GTATCGATACT-C-TATTACG
1 GTATCGATACTACATATTACG
1252657 GTATCGATA
1 GTATCGATA
1252666 ACATTTTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.56
21 1 0.04
22 11 0.41
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (21 bp):
GTATCGATACTACATATTACG
Done.