Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 64
Found at i:7990661 original size:42 final size:41
Alignment explanation
Indices: 7990601--7990801 Score: 112
Period size: 41 Copynumber: 4.9 Consensus size: 41
7990591 TAATAGGGAT
* *
7990601 ATCTATAGTGGCATTTTTTCAACAAACGCCATAATA-GAGT-
1 ATCTATTGTGGCGTTTTTTCAACAAACGCCATAATATG-GTC
* * *
7990641 AT-TATTGTAGTGATGTTTTTT-ATATAAACACCATAATATGGTC
1 ATCTATTGT-G-G-CGTTTTTTCA-ACAAACGCCATAATATGGTC
* * * **
7990684 ATCTATTGTGGCGTTTTTTCAACAAACGCAACAACAAAGT-
1 ATCTATTGTGGCGTTTTTTCAACAAACGCCATAATATGGTC
* * * * * *
7990724 AGTACT-TTAGTGGTGTTTTTAC-ACAAATGTCGTAATAGGGTC
1 A-T-CTATT-GTGGCGTTTTTTCAACAAACGCCATAATATGGTC
* *
7990766 ATCTATAGTGGC-ATTTTTCAACAAACGCCATAATAT
1 ATCTATTGTGGCGTTTTTTCAACAAACGCCATAATAT
7990802 AGTAGTACTT
Statistics
Matches: 116, Mismatches: 31, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
39 10 0.09
40 22 0.19
41 37 0.32
42 37 0.32
43 4 0.03
44 6 0.05
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (41 bp):
ATCTATTGTGGCGTTTTTTCAACAAACGCCATAATATGGTC
Found at i:7990826 original size:81 final size:82
Alignment explanation
Indices: 7990590--7990873 Score: 324
Period size: 82 Copynumber: 3.5 Consensus size: 82
7990580 TATAAATGTT
* *
7990590 GTAATAGGGAT-ATCTATAGTGGCATTTTTTCAACAAACGCCATAATAGAGTATTA-TTGTAGTG
1 GTAATAGGGATCATCTATAGTGGCA-TTTTTCAACAAACGCCATAATAAAGTAGTACTT-TAGTG
* *
7990653 ATGTTTTTTATATAAACACC
64 ATG-TTTTTACACAAACACC
* * * * * * * *
7990673 ATAATATGG-TCATCTATTGTGGCGTTTTTTCAACAAACGCAACAACAAAGTAGTACTTTAGTGG
1 GTAATAGGGATCATCTATAGTGGC-ATTTTTCAACAAACGCCATAATAAAGTAGTACTTTAGTGA
***
7990737 TGTTTTTACACAAATGTC
65 TGTTTTTACACAAACACC
*
7990755 GTAATAGGG-TCATCTATAGTGGCATTTTTCAACAAACGCCATAATATAGTAGTACTTTAGTGAT
1 GTAATAGGGATCATCTATAGTGGCATTTTTCAACAAACGCCATAATAAAGTAGTACTTTAGTGAT
*
7990819 GGTTTTACACAAACACC
66 GTTTTTACACAAACACC
* * *
7990836 GTAATAGGGTTAATCTATAGTGGCATTTTTCAAAAAAC
1 GTAATAGGGATCATCTATAGTGGCATTTTTCAACAAAC
7990874 TCCTCAATTT
Statistics
Matches: 167, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
81 57 0.34
82 58 0.35
83 50 0.30
84 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (82 bp):
GTAATAGGGATCATCTATAGTGGCATTTTTCAACAAACGCCATAATAAAGTAGTACTTTAGTGAT
GTTTTTACACAAACACC
Found at i:7990898 original size:82 final size:81
Alignment explanation
Indices: 7990590--7990873 Score: 293
Period size: 81 Copynumber: 3.5 Consensus size: 81
7990580 TATAAATGTT
* * *
7990590 GTAATAGGG-ATATCTATAGTGGCATTTTTTCAACAAACGCCATAATAGAGTATTA-TTGTAGTG
1 GTAATAGGGTA-ATCTATAGTGGCA-TTTTTCAAAAAACGCCATAATATAGTAGTACTT-TAGTG
* * *
7990653 ATGTTTTTTATATAAACACC
63 ATG-GTTTTACACAAACACC
* * * * * * * * * * *
7990673 ATAATATGGTCATCTATTGTGGCGTTTTTTCAACAAACGCAACAACAAAGTAGTACTTTAGTGGT
1 GTAATAGGGTAATCTATAGTGGC-ATTTTTCAAAAAACGCCATAATATAGTAGTACTTTAGTGAT
* ***
7990738 GTTTTTACACAAATGTC
65 GGTTTTACACAAACACC
* *
7990755 GTAATAGGGTCATCTATAGTGGCATTTTTCAACAAACGCCATAATATAGTAGTACTTTAGTGATG
1 GTAATAGGGTAATCTATAGTGGCATTTTTCAAAAAACGCCATAATATAGTAGTACTTTAGTGATG
7990820 GTTTTACACAAACACC
66 GTTTTACACAAACACC
7990836 GTAATAGGGTTAATCTATAGTGGCATTTTTCAAAAAAC
1 GTAATAGGG-TAATCTATAGTGGCATTTTTCAAAAAAC
7990874 TCCTCAATTT
Statistics
Matches: 166, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
81 57 0.34
82 57 0.34
83 50 0.30
84 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (81 bp):
GTAATAGGGTAATCTATAGTGGCATTTTTCAAAAAACGCCATAATATAGTAGTACTTTAGTGATG
GTTTTACACAAACACC
Found at i:7990938 original size:41 final size:41
Alignment explanation
Indices: 7990893--7991063 Score: 225
Period size: 41 Copynumber: 4.2 Consensus size: 41
7990883 TATCAGTATA
* * * *
7990893 TTAGTGGTGTTTATATACAAACGCCGCTAAAGACTTGTACT
1 TTAGTGGTGTTTTTATACAAACACCGCTATAGACTCGTACT
** ** *
7990934 TTAGTGGCATTTTTATACAAACGTCGCTATAGACTTGTACT
1 TTAGTGGTGTTTTTATACAAACACCGCTATAGACTCGTACT
* *
7990975 TTAGTGGTGTTTTTATACAAACACAGCTATAGACTCCTACT
1 TTAGTGGTGTTTTTATACAAACACCGCTATAGACTCGTACT
* *
7991016 TTAGTGGTCTTTTTATACAAACACCACTATAGACTCGTACT
1 TTAGTGGTGTTTTTATACAAACACCGCTATAGACTCGTACT
7991057 TTAGTGG
1 TTAGTGG
7991064 CATTTGTGTT
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 114 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (41 bp):
TTAGTGGTGTTTTTATACAAACACCGCTATAGACTCGTACT
Found at i:7992316 original size:42 final size:41
Alignment explanation
Indices: 7992225--7992348 Score: 106
Period size: 42 Copynumber: 3.0 Consensus size: 41
7992215 CGGTGTTTGA
* * ** * *
7992225 AAAAAATGATGTTAAATATCATAACCTTTAGTTGTATTTGT
1 AAAAAATGCTGCTAAATATCATAACCTTTAGCAGCATTTAT
* *
7992266 AAACAAATGCTGCTAAATATCATTACCTTTAGCAGCGTTTAT
1 AAA-AAATGCTGCTAAATATCATAACCTTTAGCAGCATTTAT
** * * *
7992308 AGAAAAATGCCACTAAAGA-CACAACCTTTAGCGGCATTTAT
1 A-AAAAATGCTGCTAAATATCATAACCTTTAGCAGCATTTAT
7992349 GAACGATAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
41 21 0.32
42 43 0.65
43 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (41 bp):
AAAAAATGCTGCTAAATATCATAACCTTTAGCAGCATTTAT
Found at i:7994131 original size:19 final size:19
Alignment explanation
Indices: 7994089--7994132 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
7994079 TATTAATGAA
7994089 TAAAATGCAATGCGAAAAG
1 TAAAATGCAATGCGAAAAG
7994108 T-AAATGCAATGC-AGAAAG
1 TAAAATGCAATGCGA-AAAG
7994126 TAAAATG
1 TAAAATG
7994133 TAGATGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
19 6 0.26
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.18
Consensus pattern (19 bp):
TAAAATGCAATGCGAAAAG
Found at i:7999000 original size:14 final size:15
Alignment explanation
Indices: 7998981--7999014 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
7998971 TGCATAAACA
7998981 GAAAATTAAAT-ACT
1 GAAAATTAAATGACT
7998995 GAAAATTAAATGACT
1 GAAAATTAAATGACT
7999010 -AAAAT
1 GAAAAT
7999015 GCAAGTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (15 bp):
GAAAATTAAATGACT
Found at i:7999772 original size:18 final size:18
Alignment explanation
Indices: 7999749--7999783 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7999739 TTCTGATCTC
*
7999749 TCTTTTTTCTTATTTTTT
1 TCTTTTTCCTTATTTTTT
*
7999767 TCTTTTTCCTTCTTTTT
1 TCTTTTTCCTTATTTTT
7999784 AAAACCCCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (18 bp):
TCTTTTTCCTTATTTTTT
Found at i:8000323 original size:16 final size:16
Alignment explanation
Indices: 8000306--8000342 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
8000296 TAATAATTAT
8000306 AAATAAAGATAAAGATAA
1 AAAT-AAGA-AAAGATAA
8000324 AAATAAGAAAAGATAA
1 AAATAAGAAAAGATAA
8000340 AAA
1 AAA
8000343 AAAACCCGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 4 0.21
18 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.14
Consensus pattern (16 bp):
AAATAAGAAAAGATAA
Found at i:8003172 original size:167 final size:165
Alignment explanation
Indices: 8002848--8003179 Score: 529
Period size: 167 Copynumber: 2.0 Consensus size: 165
8002838 AATAGGGACC
*
8002848 AATATGACCATTTAATAAACATTGGGGGCTATTTTTGATATTATACCTTAATATAAATTAGTCTT
1 AATATGACCATTTAATAAACATTGGGGGCTATTTTTGATATTATACCTTAATATAAATTAGCCTT
* * *
8002913 GCTGACTTTGTTTCCACTTTATTTTTTCCCTTTTCCCTTTTCTTTCTTCCTTTTTAATGAATTGA
66 GATGACTTTGTTTCCACTTTATTTTTTCCCTTTTCCATTTCCTTTCTTCCTTTTTAATGAATTGA
*
8002978 CCTGCTGCTCCTTCTTTTAACTTTAATAGCCTCAA
131 CCTGCTGCTCCTCCTTTTAACTTTAATAGCCTCAA
* ** * *
8003013 AATATGACCATTTTAGTAAATGTTGGGGGTTATTTTTTATATTATACCTTAATATAAATTAGCCT
1 AATATGACCA-TTTAATAAACATTGGGGGCTATTTTTGATATTATACCTTAATATAAATTAGCCT
*
8003078 TGATGACTTTGTTTCCACTTTGTTTTTTTCCCTTTTCCATTTCCTTTCTTCCTTTTTAATGAATT
65 TGATGACTTTGTTTCCACTTT-ATTTTTTCCCTTTTCCATTTCCTTTCTTCCTTTTTAATGAATT
* *
8003143 GACCTGCTGCTGCTCCTTTTAGCTTTAATAGCCTCAA
129 GACCTGCTGCTCCTCCTTTTAACTTTAATAGCCTCAA
8003180 GCTTGGGATT
Statistics
Matches: 152, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
165 10 0.07
166 68 0.45
167 74 0.49
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (165 bp):
AATATGACCATTTAATAAACATTGGGGGCTATTTTTGATATTATACCTTAATATAAATTAGCCTT
GATGACTTTGTTTCCACTTTATTTTTTCCCTTTTCCATTTCCTTTCTTCCTTTTTAATGAATTGA
CCTGCTGCTCCTCCTTTTAACTTTAATAGCCTCAA
Found at i:8007742 original size:16 final size:16
Alignment explanation
Indices: 8007717--8007748 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8007707 ATATTTAATT
8007717 ATTTCCTACTCCAATC
1 ATTTCCTACTCCAATC
*
8007733 ATTTCTTACTCCAATC
1 ATTTCCTACTCCAATC
8007749 TATATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.34, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTCCTACTCCAATC
Found at i:8009972 original size:3 final size:3
Alignment explanation
Indices: 8009958--8010003 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
8009948 TCAAAAACAA
*
8009958 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8010004 TCTTGAACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8010514 original size:217 final size:217
Alignment explanation
Indices: 8010204--8010840 Score: 1042
Period size: 217 Copynumber: 2.9 Consensus size: 217
8010194 ATCAATTTTG
* *
8010204 ACTAGGTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAATTTTCATTTTCTGAAAATACTA
1 ACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCT-AAAATACTA
* * *
8010269 AATGAGAAACTTTGAAAATCGGTTTCTCATTTTTGAAATTATCTTATGAAAGCATCTTGCCCAAA
65 AATGAGAAACTTTGAAAATCGTTTTCTCATTTTTCAAATTATCTTATGAAAGTATCTTGCCCAAA
* * *
8010334 GGTCTTATAGATGGCCTGAATGACTTGTCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGAT
130 GGTCTTATAGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAATGAT
8010399 TTAATCAATTTTGGAAATAGTTT
195 TTAATCAATTTTGGAAATAGTTT
* *
8010422 ACTAGGTAAGAAACTTTGGAAATTACTTTCTTACTTTTCAAAAATTTCATCTTCTAAAATACTAA
1 ACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAATACTAA
*
8010487 ATGAGAAACTTTGAAAATTGTTTTCTCATTTTTCAAATTATCTTATGAAAGTATCTTGCCCAAAG
66 ATGAGAAACTTTGAAAATCGTTTTCTCATTTTTCAAATTATCTTATGAAAGTATCTTGCCCAAAG
* * *
8010552 GTTTTATAGATGGACTGAAGGACTTATCATCTTGCTCGAAAGATTTATAGATGACCCGAATGATT
131 GTCTTATAGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAATGATT
8010617 TAA-CTAATTTTGGAAATAGTTT
196 TAATC-AATTTTGGAAATAGTTT
* *
8010639 AGTAGCTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTTAAAATACTA
1 ACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTC-TAAAATACTA
* *
8010704 AATGAGAAATTTTGAAAATCGTTTTCTCATTTTTCAAATTATCTTATTAAAGTATCTTGCCCAAA
65 AATGAGAAACTTTGAAAATCGTTTTCTCATTTTTCAAATTATCTTATGAAAGTATCTTGCCCAAA
* * * *
8010769 GGTCTTAAAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATAACCCGAATGAT
130 GGTCTTATAGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAATGAT
8010834 TTAATCA
195 TTAATCA
8010841 TCATGCATGA
Statistics
Matches: 388, Mismatches: 28, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
216 1 0.00
217 200 0.52
218 186 0.48
219 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (217 bp):
ACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAATACTAA
ATGAGAAACTTTGAAAATCGTTTTCTCATTTTTCAAATTATCTTATGAAAGTATCTTGCCCAAAG
GTCTTATAGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAATGATT
TAATCAATTTTGGAAATAGTTT
Found at i:8012219 original size:60 final size:60
Alignment explanation
Indices: 8012121--8012241 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 60
8012111 GCTTCGAAAG
* * * * *
8012121 AAAATGAAGAATGTCTTCATTTCTCCTATGTCGTTTATTTTTCTTACTTTGGCTCTTATT
1 AAAATGAAGAATGCCTTCATTTCTCCTATGCCGCTTATTCTTATTACTTTGGCTCTTATT
* * **
8012181 AAAATGAAGAATGCCTTTATTTCTCTTATGCCGCTTATTCTTATTGTTTTGGCTCTTATT
1 AAAATGAAGAATGCCTTCATTTCTCCTATGCCGCTTATTCTTATTACTTTGGCTCTTATT
8012241 A
1 A
8012242 TTTCCTCTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (60 bp):
AAAATGAAGAATGCCTTCATTTCTCCTATGCCGCTTATTCTTATTACTTTGGCTCTTATT
Found at i:8013340 original size:14 final size:13
Alignment explanation
Indices: 8013304--8013418 Score: 53
Period size: 12 Copynumber: 8.7 Consensus size: 13
8013294 ACTTGATTTG
8013304 TTCTCTTTTTTCTT
1 TTCT-TTTTTTCTT
8013318 TTCCATTTTTTATCTT
1 TT-C-TTTTTT-TCTT
8013334 TTC--TTTTTCTT
1 TTCTTTTTTTCTT
* *
8013345 CTTCTTTTTTCCTC
1 -TTCTTTTTTTCTT
*
8013359 TT-TTTTTCTCTT
1 TTCTTTTTTTCTT
8013371 TT-TGTTATTTTC-T
1 TTCT-TT-TTTTCTT
* *
8013384 CTCGCTTTTTTCTT
1 TTC-TTTTTTTCTT
* *
8013398 AT-TTTTTTTCTC
1 TTCTTTTTTTCTT
8013410 TTCTTTTTT
1 TTCTTTTTT
8013419 CGAAAACGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 25
0.68 0.11 0.22
Matches are distributed among these distances:
11 4 0.05
12 26 0.34
13 17 0.22
14 16 0.21
15 7 0.09
16 7 0.09
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (13 bp):
TTCTTTTTTTCTT
Found at i:8021932 original size:25 final size:25
Alignment explanation
Indices: 8021898--8021945 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
8021888 GGGTGGGAGT
*
8021898 TATAATTTGGGATTTATGGTTTGCG
1 TATAATTTGGGATTTAGGGTTTGCG
*
8021923 TATAATTTGGTATTTAGGGTTTG
1 TATAATTTGGGATTTAGGGTTTG
8021946 AGTGTAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.21, C:0.02, G:0.27, T:0.50
Consensus pattern (25 bp):
TATAATTTGGGATTTAGGGTTTGCG
Found at i:8024071 original size:15 final size:15
Alignment explanation
Indices: 8024051--8024083 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
8024041 CATCATCTTA
8024051 ATTTTTT-TAATTAAT
1 ATTTTTTATAATT-AT
8024066 ATTTTTTATAATTAT
1 ATTTTTTATAATTAT
8024081 ATT
1 ATT
8024084 ATTTGCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTTATAATTAT
Found at i:8027923 original size:3 final size:3
Alignment explanation
Indices: 8027915--8027975 Score: 79
Period size: 3 Copynumber: 20.0 Consensus size: 3
8027905 CAACAAAAAT
* *
8027915 ATA ATA ATA ATA TTA ATG AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8027962 ATA TATA ATTA ATA
1 ATA -ATA A-TA ATA
8027976 TTTATAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.04
3 44 0.85
4 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:8027936 original size:9 final size:9
Alignment explanation
Indices: 8027919--8027986 Score: 64
Period size: 9 Copynumber: 7.1 Consensus size: 9
8027909 AAAAATATAA
8027919 TAATAATAT
1 TAATAATAT
*
8027928 TAATGATATAA
1 TAAT-A-ATAT
*
8027939 TAATAATAA
1 TAATAATAT
*
8027948 TAATAATAA
1 TAATAATAT
8027957 TAATAATAT
1 TAATAATAT
8027966 ATAATTAATAT
1 -TAA-TAATAT
*
8027977 TTATAATAT
1 TAATAATAT
8027986 T
1 T
8027987 TTTTTAATCC
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
9 32 0.62
10 7 0.13
11 13 0.25
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (9 bp):
TAATAATAT
Found at i:8028354 original size:135 final size:135
Alignment explanation
Indices: 8028127--8028454 Score: 489
Period size: 135 Copynumber: 2.4 Consensus size: 135
8028117 AATTTAATCT
* * *
8028127 CATTATGAACTTCTTATCTCT--TATGGACGAGTTCTTCTCATTATGAACTCTTCACTAAAAATG
1 CATTATGAACTTCTTCTCTCTCGT-TGGATGAGTTCTTCTCATTATGAACTCTTCACTGAAAATG
*
8028190 TTGATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGATAGGTCGAACAAGC
65 TTGATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCATGAATCGAGTGATAGGTCGAACAAGC
8028255 TCTTCC
130 TCTTCC
*
8028261 CATTATGAACTTCTTCTCTCTCGTTGGATGAGTTCTTCTCATTATGAAATCTTCACTGAAAATGT
1 CATTATGAACTTCTTCTCTCTCGTTGGATGAGTTCTTCTCATTATGAACTCTTCACTGAAAATGT
* * * * *
8028326 TGATTCCTCAAGCGAGGCGTGACTGATTCGAAATGTCATGAATCGAGTGATAGGTCGAACAAGCT
66 TGATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCATGAATCGAGTGATAGGTCGAACAAGCT
*
8028391 CTTCT
131 CTTCC
* * * *
8028396 CATTATGAACTTCTTCTCCCTCTGTCGGATAAGTTCTTCTCATTATGAACTCTCCACTG
1 CATTATGAACTTCTTCTCTCTC-GTTGGATGAGTTCTTCTCATTATGAACTCTTCACTG
8028455 GAAACACTGA
Statistics
Matches: 175, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
134 20 0.11
135 122 0.70
136 33 0.19
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (135 bp):
CATTATGAACTTCTTCTCTCTCGTTGGATGAGTTCTTCTCATTATGAACTCTTCACTGAAAATGT
TGATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCATGAATCGAGTGATAGGTCGAACAAGCT
CTTCC
Found at i:8028596 original size:15 final size:15
Alignment explanation
Indices: 8028576--8028605 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8028566 GAGGCGTCAT
*
8028576 TGATTCGAAATGTCG
1 TGATTCAAAATGTCG
8028591 TGATTCAAAATGTCG
1 TGATTCAAAATGTCG
8028606 AACAAGCTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (15 bp):
TGATTCAAAATGTCG
Found at i:8029161 original size:74 final size:73
Alignment explanation
Indices: 8029063--8029200 Score: 204
Period size: 74 Copynumber: 1.9 Consensus size: 73
8029053 AAGAATTAGG
* * *
8029063 TTTTAAGAAAAATCATCTCAAGGGAGACAAAATTTTGTTTCAAGAGATAAATGTCTCAAGCGAGA
1 TTTTAAGAAAAACCATATCAAGGGAGACAAAACTTTGTTTCAAGAGA-AAATGTCTCAAGCGAGA
8029128 TGAAGTTGA
65 TGAAGTTGA
* * * *
8029137 TTTTATGAAAAACCATATTAAGGGAGACAAAACTTTGTTTCAAGAGAAATTGTCTCAAGGGAGA
1 TTTTAAGAAAAACCATATCAAGGGAGACAAAACTTTGTTTCAAGAGAAAATGTCTCAAGCGAGA
8029201 AAAAATTCGT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
73 15 0.26
74 42 0.74
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (73 bp):
TTTTAAGAAAAACCATATCAAGGGAGACAAAACTTTGTTTCAAGAGAAAATGTCTCAAGCGAGAT
GAAGTTGA
Found at i:8029229 original size:36 final size:36
Alignment explanation
Indices: 8029156--8029467 Score: 172
Period size: 36 Copynumber: 8.8 Consensus size: 36
8029146 AAACCATATT
* * * *
8029156 AAGGGAGACAAAACTTTGTTTCAAGAGAAATTGTCTC
1 AAGGGAGA-AAAAATTTGTTTCAAGGGAAACTATCTC
*
8029193 AAGGGAGAAAAAATTCGTTTCAAGGGAAACGT-TCTC
1 AAGGGAGAAAAAATTTGTTTCAAGGGAAAC-TATCTC
** *
8029229 -------AAAATTTTGTGTTTCAAGAGAAACTATCTC
1 AAGGGAGAAAAAATT-TGTTTCAAGGGAAACTATCTC
* * *
8029259 AAGGGAGACAAAATTTGTTTCAAGGGAAAATGTCTC
1 AAGGGAGAAAAAATTTGTTTCAAGGGAAACTATCTC
* * * * *
8029295 AAGAGAGACAAAATTTGTTCCAAGGGGAACGT-TTTC
1 AAGGGAGAAAAAATTTGTTTCAAGGGAAAC-TATCTC
* * *
8029331 AA---AG-----TTTATGTTTCAAGAGAAACTGTCTC
1 AAGGGAGAAAAAATT-TGTTTCAAGGGAAACTATCTC
*
8029360 AAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTC
1 AAGGGAGAAAAAATTTGTTTCAAGGGAAACTATCTC
* * *
8029396 AAGCGAGATAAAATCTTCTGTTTCGAGGGAAACTATCTC
1 AAGGGAGA-AAAA-ATT-TGTTTCAAGGGAAACTATCTC
* * *
8029435 AAGCGAGATAAAATCTTTTGTTTCAAGGAAAAC
1 AAGGGAGA-AAAA--ATTTGTTTCAAGGGAAAC
8029468 CAATCTTGAG
Statistics
Matches: 215, Mismatches: 35, Indels: 48
0.72 0.12 0.16
Matches are distributed among these distances:
28 3 0.01
29 24 0.11
30 17 0.08
32 2 0.01
33 2 0.01
36 97 0.45
37 20 0.09
38 2 0.01
39 46 0.21
40 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
AAGGGAGAAAAAATTTGTTTCAAGGGAAACTATCTC
Found at i:8029283 original size:21 final size:21
Alignment explanation
Indices: 8029257--8029320 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
8029247 AGAAACTATC
8029257 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
*
8029278 TCAA-GG-G--AAAA--TGTC
1 TCAAGGGAGACAAAATTTGTT
*
8029293 TCAAGAGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
*
8029314 CCAAGGG
1 TCAAGGG
8029321 GAACGTTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
15 7 0.22
16 1 0.03
17 5 0.16
19 5 0.16
20 2 0.06
21 12 0.38
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:8029382 original size:101 final size:102
Alignment explanation
Indices: 8029156--8029409 Score: 357
Period size: 101 Copynumber: 2.5 Consensus size: 102
8029146 AAACCATATT
* * * *
8029156 AAGGGAGACAAAACTTTGTTTCAAGAGAAATTGTCTCAAGGGAGAAAAAATTCGTTTCAAGGGAA
1 AAGGGAGACAAAA-TTTGTTTCAAGGGAAAATGTCTCAAGAGAGAAAAAATTCGTTCCAAGGGAA
* *
8029221 ACGTTCTCAAAATTTTGTGTTTCAAGAGAAACTATCTC
65 ACGTTCTCAAAAGTTTATGTTTCAAGAGAAACTATCTC
* * *
8029259 AAGGGAGACAAAATTTGTTTCAAGGGAAAATGTCTCAAGAGAGACAAAATTTGTTCCAAGGGGAA
1 AAGGGAGACAAAATTTGTTTCAAGGGAAAATGTCTCAAGAGAGAAAAAATTCGTTCCAAGGGAAA
* *
8029324 CGTTTTC-AAAGTTTATGTTTCAAGAGAAACTGTCTC
66 CGTTCTCAAAAGTTTATGTTTCAAGAGAAACTATCTC
* * * *
8029360 AAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 AAGGGAGACAAAATTTGTTTCAAGGGAAAATGTCTCAAGAGAGAAAAAAT
8029410 CTTCTGTTTC
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
101 72 0.53
102 51 0.38
103 13 0.10
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (102 bp):
AAGGGAGACAAAATTTGTTTCAAGGGAAAATGTCTCAAGAGAGAAAAAATTCGTTCCAAGGGAAA
CGTTCTCAAAAGTTTATGTTTCAAGAGAAACTATCTC
Found at i:8029490 original size:40 final size:40
Alignment explanation
Indices: 8029400--8029958 Score: 868
Period size: 40 Copynumber: 14.0 Consensus size: 40
8029390 TATCTCAAGC
* * * ** *
8029400 GAGATAAAATCTTCTGTTTCGAGG-GAAACTATCTCAAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* * *
8029439 GAGATAAAATCTTTTGTTTCAAGGAAAACCAATCTTGAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
8029479 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTAAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
8029519 GAGATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
8029559 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* * *
8029599 GAGATAAAATCTTCTGTTTCAAGAAAAAATAATCTTGATT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
8029639 GAGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* * *
8029679 GAAATAAAATCTTATGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
8029719 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
8029759 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATATTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
8029799 GAGATAAAATCTTCTGTTTCAAGGAAAAAAAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
* *
8029839 GAGATAAAATATTCTGTTTCAAGGAAAAATAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
8029879 GAGATAAAATCTTCTATTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
*
8029919 AAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
8029959 CAAATGAAAT
Statistics
Matches: 480, Mismatches: 39, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 22 0.05
40 458 0.95
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.31
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
Found at i:8029647 original size:20 final size:20
Alignment explanation
Indices: 8029584--8029648 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
8029574 GTTTCAAGGA
* *
8029584 AAAACAATCTTGAATGAGAT
1 AAAATAATCTTGATTGAGAT
** * * *
8029604 AAAATCTTC-TGTTTCAAGAA
1 AAAATAATCTTGATT-GAGAT
8029624 AAAATAATCTTGATTGAGAT
1 AAAATAATCTTGATTGAGAT
8029644 AAAAT
1 AAAAT
8029649 CTTTTGTTTC
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
19 3 0.10
20 24 0.77
21 4 0.13
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (20 bp):
AAAATAATCTTGATTGAGAT
Found at i:8029672 original size:23 final size:23
Alignment explanation
Indices: 8029646--8029714 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
8029636 ATTGAGATAA
8029646 AATCTTTTGTTTCAAGGAAAAAC
1 AATCTTTTGTTTCAAGGAAAAAC
*
8029669 AATC--TTG----AATGAAATAA-
1 AATCTTTTGTTTCAAGGAAA-AAC
*
8029686 AATCTTATGTTTCAAGGAAAAAC
1 AATCTTTTGTTTCAAGGAAAAAC
8029709 AATCTT
1 AATCTT
8029715 GAATGAGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 16
0.65 0.06 0.30
Matches are distributed among these distances:
17 10 0.29
18 2 0.06
19 2 0.06
21 3 0.09
22 2 0.06
23 16 0.46
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
AATCTTTTGTTTCAAGGAAAAAC
Found at i:8029887 original size:20 final size:20
Alignment explanation
Indices: 8029824--8029888 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
8029814 GTTTCAAGGA
*
8029824 AAAAAAATCTTGAGTGAGAT
1 AAAATAATCTTGAGTGAGAT
* ** *
8029844 AAAATATTC-TGTTTCAAGGA-
1 AAAATAATCTTGAGT-GA-GAT
8029864 AAAATAATCTTGAGTGAGAT
1 AAAATAATCTTGAGTGAGAT
8029884 AAAAT
1 AAAAT
8029889 CTTCTATTTC
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
19 5 0.16
20 22 0.69
21 5 0.16
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (20 bp):
AAAATAATCTTGAGTGAGAT
Found at i:8029912 original size:23 final size:23
Alignment explanation
Indices: 8029886--8029954 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
8029876 AGTGAGATAA
8029886 AATCTTCTATTTCAAGGAAAAAC
1 AATCTTCTATTTCAAGGAAAAAC
* * *
8029909 AATCTT-GA-GT-AA-G-ATAA-
1 AATCTTCTATTTCAAGGAAAAAC
*
8029926 AATCTTCTGTTTCAAGGAAAAAC
1 AATCTTCTATTTCAAGGAAAAAC
8029949 AATCTT
1 AATCTT
8029955 GAGTCAAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 12
0.63 0.13 0.23
Matches are distributed among these distances:
17 6 0.18
18 3 0.09
19 2 0.06
20 4 0.12
21 2 0.06
22 4 0.12
23 12 0.36
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (23 bp):
AATCTTCTATTTCAAGGAAAAAC
Found at i:8039797 original size:21 final size:21
Alignment explanation
Indices: 8039771--8039811 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8039761 CCAGAACCCC
*
8039771 TGGGGGGTATCGATTCCCCTG
1 TGGGGGGAATCGATTCCCCTG
*
8039792 TGGGGGGAATCGGTTCCCCT
1 TGGGGGGAATCGATTCCCCT
8039812 TCAAAGGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.24, G:0.39, T:0.27
Consensus pattern (21 bp):
TGGGGGGAATCGATTCCCCTG
Found at i:8039846 original size:20 final size:21
Alignment explanation
Indices: 8039794--8039854 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
8039784 TTCCCCTGTG
8039794 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
8039817 GGGGGAATCGGTTCCCTC-AT
1 GGGGGAATCGGTTCCCTCAAA
* *
8039837 GGGGGTATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
8039855 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:8048148 original size:23 final size:23
Alignment explanation
Indices: 8048121--8048180 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
8048111 AACTCAAAAA
*
8048121 CTCAATTCAAGCTCGTTTTTGAG
1 CTCAATTCAAGCTCGTTTCTGAG
8048144 CTCAATTCAAGCTCGTTTCTGAG
1 CTCAATTCAAGCTCGTTTCTGAG
**
8048167 CTTGATTCAAGCTC
1 CTCAATTCAAGCTC
8048181 AATCCTCCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (23 bp):
CTCAATTCAAGCTCGTTTCTGAG
Found at i:8050142 original size:7 final size:7
Alignment explanation
Indices: 8050130--8050190 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
8050120 AATCAGATTA
8050130 AGGGTTT
1 AGGGTTT
8050137 AGGGTTT
1 AGGGTTT
* *
8050144 AGTGCTT
1 AGGGTTT
*
8050151 AGGATTT
1 AGGGTTT
* *
8050158 AAGATTT
1 AGGGTTT
8050165 AGGGTTT
1 AGGGTTT
*
8050172 ATGGTTT
1 AGGGTTT
**
8050179 AAAGTTT
1 AGGGTTT
8050186 AGGGT
1 AGGGT
8050191 GTAATCTAAT
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.43
Consensus pattern (7 bp):
AGGGTTT
Found at i:8052002 original size:3 final size:3
Alignment explanation
Indices: 8051994--8052041 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
8051984 AACAAAAATG
* *
8051994 TAA TAA TAA TAT TAA TGA T-A TAA TAA TAA TAA TAA TATA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TAA
8052040 TA
1 TA
8052042 TTTATAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:8052016 original size:17 final size:17
Alignment explanation
Indices: 8051996--8052041 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
8051986 CAAAAATGTA
* *
8051996 ATAATAATATTAATGAT
1 ATAATAATAATAATAAT
8052013 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
8052030 AT-ATAATTAATA
1 ATAATAA-TAATA
8052042 TTTATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:8052019 original size:20 final size:19
Alignment explanation
Indices: 8051994--8052051 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
8051984 AACAAAAATG
*
8051994 TAATAATAATATTAATGATA
1 TAATAATAATAATAAT-ATA
8052014 TAATAATAATAATAATATA
1 TAATAATAATAATAATATA
* *
8052033 TAATTAATATTTATAATAT
1 TAA-TAATAATAATAATAT
8052052 TTTTTTAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 6 0.18
20 28 0.82
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TAATAATAATAATAATATA
Found at i:8052040 original size:14 final size:14
Alignment explanation
Indices: 8051997--8052041 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
8051987 AAAAATGTAA
8051997 TAATAATAT-TAAT
1 TAATAATATATAAT
*
8052010 GATATAATA-ATAA-
1 TA-ATAATATATAAT
8052023 TAATAATATATAAT
1 TAATAATATATAAT
8052037 TAATA
1 TAATA
8052042 TTTATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.23
13 6 0.23
14 14 0.54
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TAATAATATATAAT
Found at i:8052040 original size:23 final size:23
Alignment explanation
Indices: 8051994--8052050 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
8051984 AACAAAAATG
* *
8051994 TAATAATAATATTAATGATATAA
1 TAATAATAATAATAATAATATAA
8052017 TAATAATAATAATATATAAT-TAA
1 TAATAATAATAATA-ATAATATAA
* *
8052040 TATTTATAATA
1 TAATAATAATA
8052051 TTTTTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAATAATAATAATAATATAA
Found at i:8059005 original size:62 final size:62
Alignment explanation
Indices: 8058908--8059032 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
8058898 ACATCAAATA
8058908 CAAATTACACATCCATTACTTAATGACAACAATTTATTTATTTATACTGCTTAGCATGTAGG
1 CAAATTACACATCCATTACTTAATGACAACAATTTATTTATTTATACTGCTTAGCATGTAGG
8058970 CAAATTACACATCCATTACTTAATGACAACAATTTATTTATTTATACTGCTTAGCATGTAGG
1 CAAATTACACATCCATTACTTAATGACAACAATTTATTTATTTATACTGCTTAGCATGTAGG
8059032 C
1 C
8059033 TCACTTTTGA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (62 bp):
CAAATTACACATCCATTACTTAATGACAACAATTTATTTATTTATACTGCTTAGCATGTAGG
Found at i:8061285 original size:162 final size:162
Alignment explanation
Indices: 8061011--8061341 Score: 653
Period size: 162 Copynumber: 2.0 Consensus size: 162
8061001 TTTTTTCTAT
*
8061011 ACAAGTGGTTTAAGTTCATCGTCATGTGTTTCATTTACTTGTTTAAATATTAATTAAGAAAATAT
1 ACAAGTTGTTTAAGTTCATCGTCATGTGTTTCATTTACTTGTTTAAATATTAATTAAGAAAATAT
8061076 GATAATAGATTTTAATTGCTTGTGAAAAAAAATTCATTGACAATATCTCAAATAATAAGCTTATA
66 GATAATAGATTTTAATTGCTTGTGAAAAAAAATTCATTGACAATATCTCAAATAATAAGCTTATA
8061141 GATACGAATCAAACAATTACAAATCAAAAGCA
131 GATACGAATCAAACAATTACAAATCAAAAGCA
8061173 ACAAGTTGTTTAAGTTCATCGTCATGTGTTTCATTTACTTGTTTAAATATTAATTAAGAAAATAT
1 ACAAGTTGTTTAAGTTCATCGTCATGTGTTTCATTTACTTGTTTAAATATTAATTAAGAAAATAT
8061238 GATAATAGATTTTAATTGCTTGTGAAAAAAAATTCATTGACAATATCTCAAATAATAAGCTTATA
66 GATAATAGATTTTAATTGCTTGTGAAAAAAAATTCATTGACAATATCTCAAATAATAAGCTTATA
8061303 GATACGAATCAAACAATTACAAATCAAAAGCA
131 GATACGAATCAAACAATTACAAATCAAAAGCA
8061335 ACAAGTT
1 ACAAGTT
8061342 AATTACCATC
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
162 168 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (162 bp):
ACAAGTTGTTTAAGTTCATCGTCATGTGTTTCATTTACTTGTTTAAATATTAATTAAGAAAATAT
GATAATAGATTTTAATTGCTTGTGAAAAAAAATTCATTGACAATATCTCAAATAATAAGCTTATA
GATACGAATCAAACAATTACAAATCAAAAGCA
Found at i:8061678 original size:23 final size:23
Alignment explanation
Indices: 8061652--8061698 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
8061642 TCCATTCTTA
8061652 GGTATTGTACAATTTTGTCTTTG
1 GGTATTGTACAATTTTGTCTTTG
*
8061675 GGTATTGTAGAATTTTGTCTTTG
1 GGTATTGTACAATTTTGTCTTTG
8061698 G
1 G
8061699 ATCATAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.06, G:0.26, T:0.51
Consensus pattern (23 bp):
GGTATTGTACAATTTTGTCTTTG
Found at i:8061885 original size:15 final size:15
Alignment explanation
Indices: 8061844--8061887 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
8061834 AACATTTAAA
*
8061844 TAATATT-TTATTATT
1 TAATATTATTTTTA-T
8061859 TAATA-TATTTTTAT
1 TAATATTATTTTTAT
8061873 TAATATTATTTTTAT
1 TAATATTATTTTTAT
8061888 AATGTTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATATTATTTTTAT
Found at i:8065852 original size:26 final size:22
Alignment explanation
Indices: 8065793--8065855 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 22
8065783 GGTTACCTAT
8065793 GTCCTTTGGGACATATGGATAG
1 GTCCTTTGGGACATATGGATAG
* *
8065815 GTCATTCGGGACATATGTGATATG
1 GTCCTTTGGGACATATG-GATA-G
8065839 TGTTCCTTTGGGACATA
1 -G-TCCTTTGGGACATA
8065856 GTGGTCATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 15 0.45
23 4 0.12
24 1 0.03
25 1 0.03
26 12 0.36
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (22 bp):
GTCCTTTGGGACATATGGATAG
Found at i:8068466 original size:3 final size:3
Alignment explanation
Indices: 8068458--8068502 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
8068448 TGGGGAGTTA
* * *
8068458 TCT TCT TCT TCT TTT TCT TCT TCT TCG TCT TCT TCT TTT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
8068503 CGTGCCACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:8069215 original size:19 final size:20
Alignment explanation
Indices: 8069191--8069242 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
8069181 ATATAAATAG
8069191 GGTATCGGTACC-GAGAAGA
1 GGTATCGGTACCAGAGAAGA
* *
8069210 GGTATCGATACCATAGAAGA
1 GGTATCGGTACCAGAGAAGA
8069230 GTAGTATCGGTAC
1 G--GTATCGGTAC
8069243 TATATGGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.41
20 7 0.26
22 9 0.33
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (20 bp):
GGTATCGGTACCAGAGAAGA
Found at i:8071955 original size:18 final size:18
Alignment explanation
Indices: 8071929--8071963 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8071919 AACGGTTCCA
*
8071929 ACCCGACCCGACCCGTTT
1 ACCCAACCCGACCCGTTT
8071947 ACCCAACCCGACCCGTT
1 ACCCAACCCGACCCGTT
8071964 GACCAGTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.51, G:0.14, T:0.14
Consensus pattern (18 bp):
ACCCAACCCGACCCGTTT
Found at i:8072666 original size:36 final size:36
Alignment explanation
Indices: 8072619--8072691 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
8072609 AGTTCTGGAA
*
8072619 TTAAGTGATAAAAGAATCAGCCA-TGTATATGTAGAT
1 TTAAGTGATAAAAGAATCAACCACTG-ATATGTAGAT
*
8072655 TTAAGTGATAAAAGAATCAACCACTGATTTGTAGAT
1 TTAAGTGATAAAAGAATCAACCACTGATATGTAGAT
8072691 T
1 T
8072692 ATAATTTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 32 0.94
37 2 0.06
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.32
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAACCACTGATATGTAGAT
Found at i:8073238 original size:71 final size:71
Alignment explanation
Indices: 8073122--8073264 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
8073112 GGATTTGTAC
8073122 TTAACTCGATTAAGTACGAATTTAATTATTAAGATCATGTCTTTGTAAAGAAAAATTCATGATAT
1 TTAACTCGATTAAGTACGAATTTAATTATTAAGATCATGTCTTTGTAAAGAAAAATTCATGATAT
8073187 TTCGTT
66 TTCGTT
8073193 TTAACTCGATTAAGTACGAATTTAATTATTAAGATCATGTCTTTGTAAAGAAAAATTCATGATAT
1 TTAACTCGATTAAGTACGAATTTAATTATTAAGATCATGTCTTTGTAAAGAAAAATTCATGATAT
8073258 TTCGTT
66 TTCGTT
8073264 T
1 T
8073265 GTAAAATCTG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (71 bp):
TTAACTCGATTAAGTACGAATTTAATTATTAAGATCATGTCTTTGTAAAGAAAAATTCATGATAT
TTCGTT
Found at i:8074557 original size:24 final size:24
Alignment explanation
Indices: 8074525--8074609 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
8074515 AAATATTTCA
*
8074525 TCTGATTTCCGATTTGAATTCTGT
1 TCTGATTTCTGATTTGAATTCTGT
*
8074549 TCTGATTTCTGATCTGGAA-TCTGT
1 TCTGATTTCTGAT-TTGAATTCTGT
* * *
8074573 TGTGATATATG-TTCTGAATTCTGT
1 TCTGATTTCTGATT-TGAATTCTGT
*
8074597 TTTGATTTCTGAT
1 TCTGATTTCTGAT
8074610 ATCTCCATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
22 1 0.02
23 4 0.08
24 38 0.79
25 5 0.10
ACGTcount: A:0.18, C:0.13, G:0.19, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATTTGAATTCTGT
Found at i:8074597 original size:12 final size:12
Alignment explanation
Indices: 8074539--8074607 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
8074529 ATTTCCGATT
8074539 TGAATTCTGTTC
1 TGAATTCTGTTC
* *
8074551 TGATTTCTGATC
1 TGAATTCTGTTC
*
8074563 TGGAA-TCTGTTG
1 T-GAATTCTGTTC
*
8074575 TG-ATATATGTTC
1 TGAAT-TCTGTTC
*
8074587 TGAATTCTGTTT
1 TGAATTCTGTTC
*
8074599 TGATTTCTG
1 TGAATTCTG
8074608 ATATCTCCAT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
10 1 0.02
11 1 0.02
12 37 0.86
13 4 0.09
ACGTcount: A:0.17, C:0.12, G:0.20, T:0.51
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:8074774 original size:2 final size:2
Alignment explanation
Indices: 8074767--8074791 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8074757 AGGATGGTGG
8074767 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8074792 GTTTTAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8079263 original size:20 final size:20
Alignment explanation
Indices: 8079238--8079360 Score: 66
Period size: 20 Copynumber: 5.5 Consensus size: 20
8079228 CTAAAATGCG
8079238 TGAAAGGATGCATGAAGGCA
1 TGAAAGGATGCATGAAGGCA
* *
8079258 TGAAAGGATGCCATAAATAAAATGCA
1 TGAAAGGATG-C----AT-GAAGGCA
* *
8079284 TGAAAGGATGCATTAAGGCG
1 TGAAAGGATGCATGAAGGCA
*
8079304 TGAAAGGATGTCATAACGAAAATGCA
1 TGAAAGGATG-CAT---G--AAGGCA
* **
8079330 TGAAATGATGCATTCAGGCA
1 TGAAAGGATGCATGAAGGCA
8079350 TGAAAGGATGC
1 TGAAAGGATGC
8079361 CATAATTAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
20 38 0.49
21 6 0.08
25 6 0.08
26 28 0.36
ACGTcount: A:0.41, C:0.11, G:0.28, T:0.20
Consensus pattern (20 bp):
TGAAAGGATGCATGAAGGCA
Found at i:8079279 original size:46 final size:46
Alignment explanation
Indices: 8079223--8079524 Score: 346
Period size: 46 Copynumber: 6.6 Consensus size: 46
8079213 AAATCTAATT
* *
8079223 CATAACTAAAATGCGTGAAAGGATGCATGAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * *
8079269 CATAAATAAAATGCATGAAAGGATGCATTAAGGCGTGAAAGGATGT
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * *
8079315 CATAACGAAAATGCATGAAATGATGCATTCAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * * *
8079361 CATAATTAAAATACATGAAAGGATGCCATAAATGAAATGCATGAAATGATG-
1 CATAACTAAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATGC
* *
8079412 CAT---T--AAGGCATGAAAGGATGCATTAAGGCATGAAATGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
8079453 CATAACGAAAATGCATGAAAGGATACATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
8079499 CATAACAAAAATGCAAGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGC
8079525 CATAACTAAA
Statistics
Matches: 216, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
40 15 0.07
41 3 0.01
42 1 0.00
45 3 0.01
46 173 0.80
47 3 0.01
48 1 0.00
50 1 0.00
51 3 0.01
52 13 0.06
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (46 bp):
CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
Found at i:8079380 original size:72 final size:72
Alignment explanation
Indices: 8079304--8079581 Score: 363
Period size: 72 Copynumber: 3.9 Consensus size: 72
8079294 CATTAAGGCG
* * *
8079304 TGAAAGGATGTCATAACGAAAATGCATGAAATGATGCATTCAGGCATGAAAGGATGCCATAATTA
1 TGAAAGGATGCCATAACGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTA
*
8079369 AAATACA
66 AAATGCA
* *
8079376 TGAAAGGATGCCATAAATG-AAATGCATGAAATGATGCATTAAGGCATGAAAGGATG-C---ATT
1 TGAAAGGATGCCAT-AACGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATT
*
8079436 --AAGGCA
65 AAAATGCA
* * **
8079442 TGAAATGATGCCATAACGAAAATGCATGAAAGGATACATTAAGGCATGAAAGGATGCCATAACAA
1 TGAAAGGATGCCATAACGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTA
8079507 AAATGCA
66 AAATGCA
* * *
8079514 AGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAGGCCATAACTT
1 TGAAAGGATGCCATAACGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA-TT
8079579 AAA
65 AAA
8079582 TTAACGATTA
Statistics
Matches: 178, Mismatches: 19, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
65 3 0.02
66 52 0.29
67 1 0.01
68 3 0.02
70 1 0.01
71 1 0.01
72 111 0.62
73 6 0.03
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.20
Consensus pattern (72 bp):
TGAAAGGATGCCATAACGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTA
AAATGCA
Found at i:8079424 original size:20 final size:20
Alignment explanation
Indices: 8079399--8079452 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
8079389 TAAATGAAAT
8079399 GCATGAAATGATGCATTAAG
1 GCATGAAATGATGCATTAAG
*
8079419 GCATGAAAGGATGCATTAAG
1 GCATGAAATGATGCATTAAG
8079439 GCATGAAATGATGC
1 GCATGAAATGATGC
8079453 CATAACGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (20 bp):
GCATGAAATGATGCATTAAG
Found at i:8079471 original size:138 final size:138
Alignment explanation
Indices: 8079281--8079567 Score: 457
Period size: 138 Copynumber: 2.1 Consensus size: 138
8079271 TAAATAAAAT
* * * * *
8079281 GCATGAAAGGATGCATTAAGGCGTGAAAGGATGTCATAACGAAAATGCATGAAATGATGCATTCA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACGAAAATGCATGAAAGGATACATTAA
** * * *
8079346 GGCATGAAAGGATGCCATAATTAAAATACATGAAAGGATGCCATAAATGAAATGCATGAAATGAT
66 GGCATGAAAGGATGCCATAACAAAAATACAAGAAAGGATGCCATAAATAAAATGCATGAAAGGAT
8079411 GCATTAAG
131 GCATTAAG
*
8079419 GCATGAAAGGATGCATTAAGGCATGAAATGATGCCATAACGAAAATGCATGAAAGGATACATTAA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACGAAAATGCATGAAAGGATACATTAA
* *
8079484 GGCATGAAAGGATGCCATAACAAAAATGCAAGAAAGGATGCCATAACTAAAATGCATGAAAGGAT
66 GGCATGAAAGGATGCCATAACAAAAATACAAGAAAGGATGCCATAAATAAAATGCATGAAAGGAT
8079549 GCATTAAG
131 GCATTAAG
8079557 GCATGAAAGGA
1 GCATGAAAGGA
8079568 GGCCATAACT
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 136 1.00
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (138 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACGAAAATGCATGAAAGGATACATTAA
GGCATGAAAGGATGCCATAACAAAAATACAAGAAAGGATGCCATAAATAAAATGCATGAAAGGAT
GCATTAAG
Found at i:8085486 original size:21 final size:21
Alignment explanation
Indices: 8085454--8085495 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8085444 TTACAAGGTA
* *
8085454 GAAGAAGTTATGCGGGAAATT
1 GAAGAAGTTATGAGGAAAATT
8085475 GAAGAA-TCTATGAGGAAAATT
1 GAAGAAGT-TATGAGGAAAATT
8085496 CAATGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
GAAGAAGTTATGAGGAAAATT
Found at i:8085848 original size:31 final size:29
Alignment explanation
Indices: 8085810--8085890 Score: 126
Period size: 31 Copynumber: 2.7 Consensus size: 29
8085800 CGTTAAAATC
8085810 TTGCTCGACTCGTGCTCGTTAAAAAATCTTG
1 TTGCTCGACTCGTGCTCGTTAAAAAA--TTG
*
8085841 TTGCTCGACTCGTACTCGTTAAAAAATTG
1 TTGCTCGACTCGTGCTCGTTAAAAAATTG
8085870 TTGCTCGACTCGTTGCTCGTT
1 TTGCTCGACTCG-TGCTCGTT
8085891 TCTTATTAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
29 15 0.32
30 7 0.15
31 25 0.53
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (29 bp):
TTGCTCGACTCGTGCTCGTTAAAAAATTG
Found at i:8089307 original size:2 final size:2
Alignment explanation
Indices: 8089300--8089376 Score: 74
Period size: 2 Copynumber: 40.0 Consensus size: 2
8089290 AATTAAATTA
* * *
8089300 AT AT AT AT AT AT AT AT AT AT AT AT A- AA AT GACT -T AA AT -T AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -A-T AT AT AT AT AT
8089341 AT -T A- 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
8089377 TAAATATTTA
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
1 5 0.08
2 56 0.89
3 1 0.02
4 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8089351 original size:45 final size:46
Alignment explanation
Indices: 8089272--8089369 Score: 180
Period size: 45 Copynumber: 2.2 Consensus size: 46
8089262 CCATTTTCAC
*
8089272 ATATAGAAAATGACTTAAAATTAAATTAATATATATATATATATAT
1 ATATATAAAATGACTTAAAATTAAATTAATATATATATATATATAT
8089318 ATATATAAAATGACTT-AAATTAAATTAATATATATATATATATAT
1 ATATATAAAATGACTTAAAATTAAATTAATATATATATATATATAT
8089363 ATATATA
1 ATATATA
8089370 TATATATTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 36 0.71
46 15 0.29
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (46 bp):
ATATATAAAATGACTTAAAATTAAATTAATATATATATATATATAT
Found at i:8090472 original size:2 final size:2
Alignment explanation
Indices: 8090467--8090521 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
8090457 ACACACACAC
8090467 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8090509 AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT
8090522 TATTTTTGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8091125 original size:21 final size:21
Alignment explanation
Indices: 8091081--8091125 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8091071 ACTACTTAAC
* * **
8091081 ATTTTCTTTTGACTTTTTTTT
1 ATTTACTTTTAACTTTTTGAT
8091102 ATTTACTTTTAACTTTTTGAT
1 ATTTACTTTTAACTTTTTGAT
8091123 ATT
1 ATT
8091126 CTTTCTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.69
Consensus pattern (21 bp):
ATTTACTTTTAACTTTTTGAT
Found at i:8094468 original size:79 final size:79
Alignment explanation
Indices: 8094337--8094493 Score: 226
Period size: 79 Copynumber: 2.0 Consensus size: 79
8094327 TTTCAAGCTA
* *
8094337 GATTTCAACTTCAGGACAGAGGATATAATACTCAAGTCATCCAACATCGACTCAACTTCACCATG
1 GATTTCAACTTCACGACAGAGGATATAATACTCAAGTCATCCAACATCGACTCAACTTCACCACG
*
8094402 AAAGATTCATCCAT
66 AAAGAGTCATCCAT
* * * * *
8094416 GATTTCAACTTCACGAC-GAAGGATATCATGCTCAAGTCATCCGAGATCGACTCAACTTCACGAC
1 GATTTCAACTTCACGACAG-AGGATATAATACTCAAGTCATCCAACATCGACTCAACTTCACCAC
8094480 GAAAGAGTCATCCA
65 GAAAGAGTCATCCA
8094494 CAATTTAGCT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 1 0.01
79 68 0.99
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (79 bp):
GATTTCAACTTCACGACAGAGGATATAATACTCAAGTCATCCAACATCGACTCAACTTCACCACG
AAAGAGTCATCCAT
Found at i:8097639 original size:21 final size:21
Alignment explanation
Indices: 8097615--8097660 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 21
8097605 TCATTTCATG
8097615 TCAAATTCATATTAT-ATA-TTT
1 TCAAA-TCATA-TATCATACTTT
8097636 TC-AATCATATATCATACTTT
1 TCAAATCATATATCATACTTT
8097656 TCAAA
1 TCAAA
8097661 CAACATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 3 0.14
19 8 0.36
20 7 0.32
21 4 0.18
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (21 bp):
TCAAATCATATATCATACTTT
Found at i:8097645 original size:19 final size:20
Alignment explanation
Indices: 8097621--8097659 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8097611 CATGTCAAAT
8097621 TCATATTAT-ATA-TTTTCAA
1 TCATA-TATCATACTTTTCAA
8097640 TCATATATCATACTTTTCAA
1 TCATATATCATACTTTTCAA
8097660 ACAACATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 8 0.44
20 7 0.39
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (20 bp):
TCATATATCATACTTTTCAA
Found at i:8099072 original size:9 final size:9
Alignment explanation
Indices: 8099058--8099111 Score: 72
Period size: 9 Copynumber: 5.7 Consensus size: 9
8099048 TTCAATATCT
8099058 ATATTATTA
1 ATATTATTA
8099067 ATATTATTTA
1 ATATTA-TTA
8099077 TATATTATTA
1 -ATATTATTA
8099087 ATATTATTA
1 ATATTATTA
8099096 ATTATTATTA
1 A-TATTATTA
*
8099106 TTATTA
1 ATATTA
8099112 CAACCCAAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
9 21 0.51
10 14 0.34
11 6 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
ATATTATTA
Found at i:8099074 original size:3 final size:3
Alignment explanation
Indices: 8099059--8099111 Score: 61
Period size: 3 Copynumber: 16.7 Consensus size: 3
8099049 TCAATATCTA
* *
8099059 TAT TAT TAA TAT TATT TAT ATAT TAT TAA TAT TAT TAAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT T-AT TAT TAT TAT
8099107 TAT TA
1 TAT TA
8099112 CAACCCAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
3 34 0.79
4 9 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:8099149 original size:14 final size:14
Alignment explanation
Indices: 8099130--8099159 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8099120 ACCCAAGTAC
8099130 AACCAAACAACCCA
1 AACCAAACAACCCA
*
8099144 AACCAAACTACCCA
1 AACCAAACAACCCA
8099158 AA
1 AA
8099160 ACCCAAGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.40, G:0.00, T:0.03
Consensus pattern (14 bp):
AACCAAACAACCCA
Found at i:8100859 original size:21 final size:21
Alignment explanation
Indices: 8100835--8100882 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
8100825 TTACTGTTTT
8100835 TTATTTTCATT-ATTATTTTAA
1 TTATTTT-ATTAATTATTTTAA
*
8100856 TTATGTTTATTAATTGTTTTAA
1 TTAT-TTTATTAATTATTTTAA
8100878 -TATTT
1 TTATTT
8100883 CATAGTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 10 0.42
22 12 0.50
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
TTATTTTATTAATTATTTTAA
Found at i:8106510 original size:21 final size:23
Alignment explanation
Indices: 8106465--8106510 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
8106455 ATTATGAAAC
*
8106465 TTTATGTCATTTTCAGCATCTTT
1 TTTATGTCATTTTCAGCAACTTT
*
8106488 TTTAT-TCATTTTC-TCAACTTT
1 TTTATGTCATTTTCAGCAACTTT
8106509 TT
1 TT
8106511 GTAAGGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 8 0.38
23 5 0.24
ACGTcount: A:0.17, C:0.17, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATGTCATTTTCAGCAACTTT
Found at i:8107211 original size:2 final size:2
Alignment explanation
Indices: 8107204--8107249 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
8107194 TATCTTTTCA
8107204 AT AT AT AT AT AT -T AT AT AT AT AT -T 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
8107244 AT AT AT
1 AT AT AT
8107250 CCCTTGTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:8107543 original size:24 final size:24
Alignment explanation
Indices: 8107508--8107601 Score: 95
Period size: 24 Copynumber: 3.9 Consensus size: 24
8107498 AAAATATAGC
*
8107508 AAAAAG-GGGAAAAAAGAAAAGAA
1 AAAAAGAGAGAAAAAAGAAAAGAA
8107531 AGAAAA-AGAGAAAAAA-ACAAAGAA
1 A-AAAAGAGAGAAAAAAGA-AAAGAA
* *
8107555 AAAAAGCAAAGAAAAAAAGAAAATAA
1 AAAAAG-AGAG-AAAAAAGAAAAGAA
*
8107581 AAAAAGAGAGAAGAAAGAAAA
1 AAAAAGAGAGAAAAAAGAAAA
8107602 CCGATCAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
23 6 0.10
24 29 0.49
25 6 0.10
26 17 0.29
27 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.01
Consensus pattern (24 bp):
AAAAAGAGAGAAAAAAGAAAAGAA
Found at i:8107545 original size:25 final size:24
Alignment explanation
Indices: 8107508--8107601 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 24
8107498 AAAATATAGC
* *
8107508 AAAAAGGGGAAAAAAGAAAAGAAA
1 AAAAAGAGAAAAAAAGAAAAGAAA
*
8107532 GAAAAAGAGAAAAAAA-CAAAGAAA
1 -AAAAAGAGAAAAAAAGAAAAGAAA
* *
8107556 AAAAGCAAAGAAAAAAAGAAAA-TAA
1 AAAA--AGAGAAAAAAAGAAAAGAAA
*
8107581 AAAAAGAGAGAAGAAAGAAAA
1 AAAAAGAGA-AAAAAAGAAAA
8107602 CCGATCAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
23 8 0.14
24 17 0.30
25 29 0.51
26 3 0.05
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.01
Consensus pattern (24 bp):
AAAAAGAGAAAAAAAGAAAAGAAA
Found at i:8107559 original size:13 final size:14
Alignment explanation
Indices: 8107520--8107601 Score: 80
Period size: 13 Copynumber: 5.8 Consensus size: 14
8107510 AAAGGGGAAA
*
8107520 AAAGAAAAGAAAGAA
1 AAAGAAAA-AAAGAC
8107535 AAAGAGAAAAAA-AC
1 AAAGA-AAAAAAGAC
8107549 AAAGAAAAAAAG-C
1 AAAGAAAAAAAGAC
8107562 AAAGAAAAAAAGA-
1 AAAGAAAAAAAGAC
* *
8107575 AAATAAAAAAAGAG
1 AAAGAAAAAAAGAC
8107589 AGAAGAAAGAAAA
1 A-AAGAAA-AAAA
8107602 CCGATCAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
13 31 0.53
14 7 0.12
15 13 0.22
16 7 0.12
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.01
Consensus pattern (14 bp):
AAAGAAAAAAAGAC
Found at i:8109777 original size:42 final size:42
Alignment explanation
Indices: 8109731--8109845 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
8109721 AAGGGTTTCT
* *
8109731 TGATGAGTAAGTCCTTTGGGCCATCAATAAGTCTTTCAAGCA
1 TGATGTGTAAGTCCTTCGGGCCATCAATAAGTCTTTCAAGCA
* * * *
8109773 TGATGTGTAAGTCCTTCAGACCATCAGTAAGTCTTTCGAGCA
1 TGATGTGTAAGTCCTTCGGGCCATCAATAAGTCTTTCAAGCA
* *
8109815 TGATGTGTAAGACCTTCGGGCCATCCATAAG
1 TGATGTGTAAGTCCTTCGGGCCATCAATAAG
8109846 ACCTTCGGGT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (42 bp):
TGATGTGTAAGTCCTTCGGGCCATCAATAAGTCTTTCAAGCA
Found at i:8109783 original size:22 final size:22
Alignment explanation
Indices: 8109758--8109825 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
8109748 GGGCCATCAA
8109758 TAAGTCTTTCAAGCATGATGTG
1 TAAGTCTTTCAAGCATGATGTG
* * *
8109780 TAAGTCCTTCAGACCATCA---G
1 TAAGTCTTTCA-AGCATGATGTG
*
8109800 TAAGTCTTTCGAGCATGATGTG
1 TAAGTCTTTCAAGCATGATGTG
8109822 TAAG
1 TAAG
8109826 ACCTTCGGGC
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
19 5 0.14
20 10 0.29
22 15 0.43
23 5 0.14
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (22 bp):
TAAGTCTTTCAAGCATGATGTG
Found at i:8110256 original size:237 final size:236
Alignment explanation
Indices: 8109842--8110585 Score: 879
Period size: 257 Copynumber: 3.1 Consensus size: 236
8109832 GGGCCATCCA
* * *
8109842 TAAGACCTTCGGGTAGGATGTTTTCAATATTT-TGATTCATCACAAATGGATTTGAATCAACAAC
1 TAAGACCTTCGGGCATGATGTTTTCAATATTTCTGATTCATCACAAATGGAGTTGAATCAACAAC
* * **
8109906 ACTAAACTTGAGGGACCAACGTGATATGTGGGGGTTCCTTGATGACAACTAAGAAGTTGAA-CTT
66 ACT-AACTCGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGACAACTAAGAAACT-AAGCTT
* * *
8109970 GATTTTCAAGGGTTTATAGATGAGTAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGGTGC
129 GATTTTCAAGGGTTTCTTGATGAGTAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
*
8110035 AG-AAGCCATTCGGACCATCAGTAAGCCTTTCAAGCATGATGTG
194 -GTAAGCCATTCGGACCATCAGTAAGTCTTTCAAGCATGATGTG
**
8110078 TAAGACCTTCGGGCATGATGTTTTCAATATTTCTGATTCATCACAAACAGAGTTGAATCAACAAC
1 TAAGACCTTCGGGCATGATGTTTTCAATATTTCTGATTCATCACAAATGGAGTTGAATCAACAAC
* ** *
8110143 ACTAAGCTCGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGGCGGCCAAGAAACTAAGCTTG
66 ACTAA-CTCGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTG
* * *
8110208 ATTTTCAAGGGTTTCTTGATGAATAAGTTCTTCGGGCTATCAGTAAGTCTTTCGAGTATGATGCG
130 ATTTTCAAGGGTTTCTTGATGAGTAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCG
*** *
8110273 TAATTTATTCGGGCCATCAGTAAGTCTTTCGAA-CATGATGTG
195 TAAGCCATTCGGACCATCAGTAAGTCTTTC-AAGCATGATGTG
*
8110315 TAAGACCTTTGGGCCATCCATAAGACCTACGGACAAGATATTTTCAATATTTCTGATTCATCACA
1 TAAGACCTTCGGG-----CAT--GA--T--------G---TTTTCAATATTTCTGATTCATCACA
* *
8110380 AATGGAGTTGAATCAACAATACCTCACTCGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGA
46 AATGGAGTTGAATCAACAACA-CTAACTCGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGA
*
8110445 CAACTAAGAAACTGAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAG-TCTTTCGGGCCATCAGT
110 CAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTTC-TTCGGGCCATCAGT
* ** * * * *
8110509 AAGTCTTTTGAGCATGATGCGTAAGTCC-TTTAGACCATCAATAAATCTTTCGAGCATGATATG
174 AAGTCTTTCGAGCATGATGCGTAAG-CCATTCGGACCATCAGTAAGTCTTTCAAGCATGATGTG
8110572 TAAGACCTTCGGGC
1 TAAGACCTTCGGGC
8110586 CATTCATAAG
Statistics
Matches: 430, Mismatches: 49, Indels: 42
0.83 0.09 0.08
Matches are distributed among these distances:
236 35 0.08
237 183 0.43
238 2 0.00
242 3 0.01
244 2 0.00
246 1 0.00
252 1 0.00
254 1 0.00
256 3 0.01
257 196 0.46
258 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (236 bp):
TAAGACCTTCGGGCATGATGTTTTCAATATTTCTGATTCATCACAAATGGAGTTGAATCAACAAC
ACTAACTCGAGGGACCAACGTGATATGTAGGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGA
TTTTCAAGGGTTTCTTGATGAGTAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGT
AAGCCATTCGGACCATCAGTAAGTCTTTCAAGCATGATGTG
Found at i:8110311 original size:42 final size:42
Alignment explanation
Indices: 8110238--8110317 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
8110228 GAATAAGTTC
* **
8110238 TTCGGGCTATCAGTAAGTCTTTCGAGTATGATGCGTAATTTA
1 TTCGGGCCATCAGTAAGTCTTTCGAACATGATGCGTAATTTA
*
8110280 TTCGGGCCATCAGTAAGTCTTTCGAACATGATGTGTAA
1 TTCGGGCCATCAGTAAGTCTTTCGAACATGATGCGTAA
8110318 GACCTTTGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (42 bp):
TTCGGGCCATCAGTAAGTCTTTCGAACATGATGCGTAATTTA
Found at i:8110329 original size:42 final size:42
Alignment explanation
Indices: 8110238--8110332 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 42
8110228 GAATAAGTTC
* ** ***
8110238 TTCGGGCTATCAGTAAGTCTTTCGAGTATGATGCGTAATTTA
1 TTCGGGCCATCAGTAAGTCTTTCGAACATGATGCGTAAGACA
* *
8110280 TTCGGGCCATCAGTAAGTCTTTCGAACATGATGTGTAAGACC
1 TTCGGGCCATCAGTAAGTCTTTCGAACATGATGCGTAAGACA
*
8110322 TTTGGGCCATC
1 TTCGGGCCATC
8110333 CATAAGACCT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (42 bp):
TTCGGGCCATCAGTAAGTCTTTCGAACATGATGCGTAAGACA
Found at i:8110527 original size:42 final size:42
Alignment explanation
Indices: 8110481--8110588 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
8110471 AAGGGTTTCT
* * *
8110481 TGATGAGTAAGTCTTTCGGGCCATCAGTAAGTCTTTTGAGCA
1 TGATGAGTAAGTCTTTCGGGCCATCAATAAATCTTTCGAGCA
* * *
8110523 TGATGCGTAAGTCCTTT-AGACCATCAATAAATCTTTCGAGCA
1 TGATGAGTAAGT-CTTTCGGGCCATCAATAAATCTTTCGAGCA
* *
8110565 TGAT-ATGTAAGACCTTCGGGCCAT
1 TGATGA-GTAAGTCTTTCGGGCCAT
8110589 TCATAAGACC
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
41 3 0.06
42 45 0.87
43 4 0.08
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (42 bp):
TGATGAGTAAGTCTTTCGGGCCATCAATAAATCTTTCGAGCA
Found at i:8110957 original size:9 final size:9
Alignment explanation
Indices: 8110943--8110999 Score: 69
Period size: 9 Copynumber: 6.0 Consensus size: 9
8110933 CATTTTTAAT
8110943 ATATTATTA
1 ATATTATTA
8110952 ATATTATTTA
1 ATATTA-TTA
8110962 TATATTATTA
1 -ATATTATTA
*
8110972 ATATTTTTA
1 ATATTATTA
8110981 ATTATTATTA
1 A-TATTATTA
*
8110991 TTATTATTA
1 ATATTATTA
8111000 CAACCCAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
9 23 0.55
10 13 0.31
11 6 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
ATATTATTA
Found at i:8110959 original size:3 final size:3
Alignment explanation
Indices: 8110944--8110999 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
8110934 ATTTTTAATA
* * *
8110944 TAT TAT TAA TAT TATT TAT ATAT TAT TAA TAT TTT TAAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT T-AT TAT TAT TAT
8110992 TAT TAT TA
1 TAT TAT TA
8111000 CAACCCAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 36 0.82
4 8 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:8117289 original size:2 final size:2
Alignment explanation
Indices: 8117282--8117328 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
8117272 ACATATAACA
8117282 AT AT AT AT A- AT AT A- 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
8117322 AT AT AT A
1 AT AT AT A
8117329 ATGTTATATG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8117336 original size:12 final size:13
Alignment explanation
Indices: 8117282--8117343 Score: 65
Period size: 12 Copynumber: 4.8 Consensus size: 13
8117272 ACATATAACA
*
8117282 ATATATATAATATA
1 ATATATAT-ATATT
8117296 ATATATATATA-T
1 ATATATATATATT
8117308 ATATATATATA-T
1 ATATATATATATT
*
8117320 ATATATATAATGTT
1 ATATATAT-ATATT
*
8117334 ATATGTATAT
1 ATATATATAT
8117344 CTAACATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
12 20 0.47
13 7 0.16
14 16 0.37
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (13 bp):
ATATATATATATT
Found at i:8117336 original size:16 final size:15
Alignment explanation
Indices: 8117283--8117343 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 15
8117273 CATATAACAA
8117283 TATATATAATATAATAT
1 TATATAT-ATATAAT-T
*
8117300 ATATATATATATATATA
1 -TATATATATATA-ATT
8117317 TATATATATATAATGT
1 TATATATATATAAT-T
*
8117333 TATATGTATAT
1 TATATATATAT
8117344 CTAACATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
15 2 0.05
16 22 0.58
17 5 0.13
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TATATATATATAATT
Found at i:8117337 original size:14 final size:13
Alignment explanation
Indices: 8117268--8117330 Score: 78
Period size: 12 Copynumber: 5.0 Consensus size: 13
8117258 AATATGTTAG
* *
8117268 ATATACATATAAC
1 ATATATATATAAT
8117281 A-ATATATATAAT
1 ATATATATATAAT
8117293 ATA-ATATAT-AT
1 ATATATATATAAT
8117304 ATATATATATATAT
1 ATATATATATA-AT
8117318 ATATATATATAAT
1 ATATATATATAAT
8117331 GTTATATGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
11 5 0.11
12 22 0.50
13 4 0.09
14 13 0.30
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATATATATAAT
Found at i:8119885 original size:79 final size:79
Alignment explanation
Indices: 8119791--8119948 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
8119781 ATGTAATAAA
8119791 TTAATCATTAATTTTATTGATTTATAATAAATCAGTGACTCTCCGATACTGCTTTGTATTTTACT
1 TTAATCATTAATTTTATTGATTTATAATAAATCAGTGACTCTCCGATACTGCTTTGTATTTTACT
8119856 TAGTTTGCGTTTAG
66 TAGTTTGCGTTTAG
8119870 TTAATCATTAATTTTATTGATTTATAATAAATCAGTGACTCTCCGATACTGCTTTGTATTTTACT
1 TTAATCATTAATTTTATTGATTTATAATAAATCAGTGACTCTCCGATACTGCTTTGTATTTTACT
8119935 TAGTTTGCGTTTAG
66 TAGTTTGCGTTTAG
8119949 CGTTGCTTTT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (79 bp):
TTAATCATTAATTTTATTGATTTATAATAAATCAGTGACTCTCCGATACTGCTTTGTATTTTACT
TAGTTTGCGTTTAG
Found at i:8120313 original size:23 final size:23
Alignment explanation
Indices: 8120269--8120336 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
8120259 TGTTCGTGTT
* * *
8120269 TGTTTATTTATTGTTTGAGAATA
1 TGTTTATTTAATGTTCGCGAATA
* *
8120292 TGTTTGTTTAATGTTCGCGAATG
1 TGTTTATTTAATGTTCGCGAATA
* *
8120315 TGTTCATTTATATGTTCACGAA
1 TGTTTATTTA-ATGTTCGCGAA
8120337 CTTGTTCATT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 26 0.72
24 10 0.28
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (23 bp):
TGTTTATTTAATGTTCGCGAATA
Found at i:8120336 original size:24 final size:23
Alignment explanation
Indices: 8120298--8120348 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
8120288 AATATGTTTG
*
8120298 TTTAATGTTCGCGAA-TGTGTTCA
1 TTTAATGTTCACGAACT-TGTTCA
8120321 TTTATATGTTCACGAACTTGTTCA
1 TTTA-ATGTTCACGAACTTGTTCA
8120345 TTTA
1 TTTA
8120349 GCATTTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 4 0.16
24 20 0.80
25 1 0.04
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.47
Consensus pattern (23 bp):
TTTAATGTTCACGAACTTGTTCA
Found at i:8120380 original size:11 final size:11
Alignment explanation
Indices: 8120352--8120411 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 11
8120342 TCATTTAGCA
*
8120352 TTTG-TTAATT
1 TTTGTTTAATG
*
8120362 TTTTTTTAATG
1 TTTGTTTAATG
8120373 TTTGTTTAATG
1 TTTGTTTAATG
*
8120384 -TT-TTTAGTG
1 TTTGTTTAATG
*
8120393 TTTGTTTATTG
1 TTTGTTTAATG
*
8120404 TTCGTTTA
1 TTTGTTTA
8120412 TATATTTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
9 6 0.15
10 7 0.17
11 28 0.68
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.68
Consensus pattern (11 bp):
TTTGTTTAATG
Found at i:8120389 original size:20 final size:20
Alignment explanation
Indices: 8120364--8120405 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
8120354 TGTTAATTTT
8120364 TTTTTAATGTTTGTTTAATG
1 TTTTTAATGTTTGTTTAATG
* *
8120384 TTTTTAGTGTTTGTTTATTG
1 TTTTTAATGTTTGTTTAATG
8120404 TT
1 TT
8120406 CGTTTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (20 bp):
TTTTTAATGTTTGTTTAATG
Found at i:8122628 original size:3 final size:3
Alignment explanation
Indices: 8122620--8122668 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
8122610 TATCAACGAT
*
8122620 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8122668 T
1 T
8122669 CACCATCATC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8129628 original size:14 final size:14
Alignment explanation
Indices: 8129609--8129646 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
8129599 GCTTTGGGAC
8129609 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
8129623 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
8129637 TTTTTTATTT
1 TTTTTTATTT
8129647 GGGGTTAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:8130231 original size:75 final size:75
Alignment explanation
Indices: 8130108--8130262 Score: 247
Period size: 75 Copynumber: 2.1 Consensus size: 75
8130098 AGACCAACAA
* *
8130108 AGTTTGGAGCATTGCCTCTCCCACCCATAGTTAACTGGTGGCTGATATAGTTTATCCTACAATAT
1 AGTTTGGAGCATTGCCTCTCCCACCCATAGTTAACTGGCGACTGATATAGTTTATCCTACAATAT
8130173 AAAACTCTAT
66 AAAACTCTAT
* **
8130183 AGTTTGGAGCATTGCCTCTCCCACCTATAGTTAGGTGGCGACTGATATAGTTTATCCTACAATAT
1 AGTTTGGAGCATTGCCTCTCCCACCCATAGTTAACTGGCGACTGATATAGTTTATCCTACAATAT
* *
8130248 AAAACTTTTT
66 AAAACTCTAT
8130258 AGTTT
1 AGTTT
8130263 TACATATATT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (75 bp):
AGTTTGGAGCATTGCCTCTCCCACCCATAGTTAACTGGCGACTGATATAGTTTATCCTACAATAT
AAAACTCTAT
Found at i:8131862 original size:17 final size:17
Alignment explanation
Indices: 8131824--8131855 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8131814 CCATGTACAC
8131824 ATGTGAGATCTATAGAT
1 ATGTGAGATCTATAGAT
8131841 ATGTGAG-TCTATAGA
1 ATGTGAGATCTATAGA
8131856 GGTTGTGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (17 bp):
ATGTGAGATCTATAGAT
Found at i:8131919 original size:23 final size:23
Alignment explanation
Indices: 8131890--8131953 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
8131880 CAACTCGTAT
*
8131890 AAATGCACTGAAGTGCCACGTAG
1 AAATGCACTGAAGTGCCACATAG
* * *
8131913 AATTGCACCGTAGTGCCACATAG
1 AAATGCACTGAAGTGCCACATAG
8131936 AAATGCA-TCGAAGTGCCA
1 AAATGCACT-GAAGTGCCA
8131954 TATAAGATTG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (23 bp):
AAATGCACTGAAGTGCCACATAG
Found at i:8132207 original size:22 final size:23
Alignment explanation
Indices: 8132165--8132207 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8132155 TGTCATTTCA
8132165 CATTTTCACATAAACACGTAGTT
1 CATTTTCACATAAACACGTAGTT
*
8132188 CATTTTCACAT-AGCACGTAG
1 CATTTTCACATAAACACGTAG
8132208 ATTATGTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (23 bp):
CATTTTCACATAAACACGTAGTT
Found at i:8132876 original size:64 final size:63
Alignment explanation
Indices: 8132767--8132925 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 63
8132757 TTCCCTTGAA
* * * *
8132767 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCGATATTTCCATTTTTAA-GGG
* * ** *
8132831 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATATTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCGATATTTCCATTTTTAAGGG
*
8132895 GTGCATCGATGCACTTCCTGTGCATCGATAC
1 GTGCATCGATGCAC-TCCTATGCATCGATAC
8132926 GCACTTAACA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.02
64 70 0.86
65 9 0.11
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATATTTCCATTTTTAAGGG
Found at i:8134617 original size:25 final size:27
Alignment explanation
Indices: 8134561--8134618 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 27
8134551 AGATTAATAA
*
8134561 TATTTATATTAAATATTATTTAGCAAT
1 TATTTATATTAAATATTATTTAGAAAT
*
8134588 CATTTATATT-AA-ATTATTT-GTAAAT
1 TATTTATATTAAATATTATTTAG-AAAT
8134613 TATTTA
1 TATTTA
8134619 AACAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 15 0.56
26 2 0.07
27 9 0.33
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (27 bp):
TATTTATATTAAATATTATTTAGAAAT
Found at i:8134850 original size:29 final size:29
Alignment explanation
Indices: 8134808--8134870 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
8134798 ATATGACATT
8134808 TTGGTGACCAATCTCACCAAATTAAAAGA
1 TTGGTGACCAATCTCACCAAATTAAAAGA
8134837 TTGGTGACCAATCTCACCAAATTAAAAGA
1 TTGGTGACCAATCTCACCAAATTAAAAGA
8134866 TTGGT
1 TTGGT
8134871 AGCGACTCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (29 bp):
TTGGTGACCAATCTCACCAAATTAAAAGA
Found at i:8144264 original size:36 final size:36
Alignment explanation
Indices: 8144202--8144314 Score: 176
Period size: 36 Copynumber: 3.2 Consensus size: 36
8144192 TAGTGGAAAC
*
8144202 AAGCAATGC-AA-TCAAGCCTTCACAAAAGAGTAGTG
1 AAGCAATGCAAATTC-ATCCTTCACAAAAGAGTAGTG
* *
8144237 AAGCAATTCAAATTCATTCTTCACAAAAGAGTAGTG
1 AAGCAATGCAAATTCATCCTTCACAAAAGAGTAGTG
8144273 AAGCAATGCAAATTCATCCTTCACAAAAGAGTAGTG
1 AAGCAATGCAAATTCATCCTTCACAAAAGAGTAGTG
8144309 AAGCAA
1 AAGCAA
8144315 GATCATATCA
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 8 0.11
36 61 0.86
37 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (36 bp):
AAGCAATGCAAATTCATCCTTCACAAAAGAGTAGTG
Found at i:8145840 original size:13 final size:13
Alignment explanation
Indices: 8145822--8145869 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
8145812 TAAGAATACT
8145822 AATATTTATATTA
1 AATATTTATATTA
*
8145835 AATATTATATAGT-
1 AATATT-TATATTA
8145848 AATCATTTATATTA
1 AAT-ATTTATATTA
8145862 AATTATTT
1 AA-TATTT
8145870 TTAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 14 0.48
14 14 0.48
15 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (13 bp):
AATATTTATATTA
Found at i:8147258 original size:65 final size:65
Alignment explanation
Indices: 8147125--8147284 Score: 184
Period size: 65 Copynumber: 2.5 Consensus size: 65
8147115 TGCACTAAGA
* * *
8147125 GTGCATCGATCCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGACTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAACAGCCAGAGTGCATCGATGCATGACTG
* * * * *
8147189 GTGCATCGATGTATCAAATGCATTCGATGTTTTCATAACATCCTCG-GTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAACAGCC-AGAGTGCATCGATGCAT-G-A
8147253 -T-
63 CTG
*
8147254 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
8147285 CAATTTAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 26 0.32
65 52 0.63
66 3 0.04
67 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAACAGCCAGAGTGCATCGATGCATGACTG
Found at i:8147323 original size:65 final size:64
Alignment explanation
Indices: 8147125--8147334 Score: 182
Period size: 65 Copynumber: 3.2 Consensus size: 64
8147115 TGCACTAAGA
* * * * *
8147125 GTGCATCGATCCATCAAGTGCATTCGATGTTTCA-AA-AT-AGCCAGAGTGCATCGATGCATGAC
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTATAACATCA-TC-G-GTGCATCGATGCATGAT
8147187 TG
63 TG
* * * *
8147189 GTGCATCGATGTATCAAATGCATTCGATGTTTTCATAACATCCTCGGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTT-ATAACATCATCGGTGCATCGATGCATGAT-T
8147254 -
64 G
* *
8147254 GTGCATCGATGCATGAAATGCATTCGATGTTCAATT-TAA-TTCAT-GGTGCATCGATGCATGAA
1 GTGCATCGATGCATCAAATGCATTCGATGTT---TTATAACATCATCGGTGCATCGATGCATG-A
8147316 TTG
62 TTG
*
8147319 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
8147335 CTCTGAAAAA
Statistics
Matches: 119, Mismatches: 17, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
64 45 0.38
65 62 0.52
66 7 0.06
67 3 0.03
68 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTATAACATCATCGGTGCATCGATGCATGATTG
Found at i:8155815 original size:18 final size:17
Alignment explanation
Indices: 8155761--8155809 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
8155751 TTGGACCCTT
* *
8155761 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
8155779 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
8155797 AGTGCATTCGATG
1 AGTGCA-TCGATG
8155810 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:8155849 original size:64 final size:64
Alignment explanation
Indices: 8155781--8155990 Score: 237
Period size: 65 Copynumber: 3.2 Consensus size: 64
8155771 TGCACTAAGA
* * * *
8155781 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCATAGTGCATCGATGCATGACTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATATCCATGGTGCATCGATGCATGAATG
* * * *
8155845 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAACATCC-TCGGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAAAATATCCAT-GGTGCATCGATGCAT-GAA
8155909 T-
63 TG
* ** *
8155910 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGAATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAAT-ATCCATGGTGCATCGATGCATGAA-T
8155974 G
64 G
*
8155975 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
8155991 CTCTGAAAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
63 6 0.05
64 47 0.39
65 66 0.55
66 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATATCCATGGTGCATCGATGCATGAATG
Found at i:8156867 original size:28 final size:28
Alignment explanation
Indices: 8156846--8156913 Score: 136
Period size: 28 Copynumber: 2.4 Consensus size: 28
8156836 ATTAAAATTT
8156846 AATTATAATTTTAATAGAATTATTATTA
1 AATTATAATTTTAATAGAATTATTATTA
8156874 AATTATAATTTTAATAGAATTATTATTA
1 AATTATAATTTTAATAGAATTATTATTA
8156902 AATTATAATTTT
1 AATTATAATTTT
8156914 TAGGGTAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATAATTTTAATAGAATTATTATTA
Found at i:8156868 original size:17 final size:17
Alignment explanation
Indices: 8156846--8156896 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
8156836 ATTAAAATTT
8156846 AATTATAATTTTAATAG
1 AATTATAATTTTAATAG
*
8156863 AA-T-T-A--TTATTA-
1 AATTATAATTTTAATAG
8156874 AATTATAATTTTAATAG
1 AATTATAATTTTAATAG
8156891 AATTAT
1 AATTAT
8156897 TATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 12
0.65 0.05 0.30
Matches are distributed among these distances:
11 2 0.08
12 6 0.23
13 1 0.04
14 2 0.08
15 1 0.04
16 6 0.23
17 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
AATTATAATTTTAATAG
Found at i:8159323 original size:26 final size:27
Alignment explanation
Indices: 8159273--8159326 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
8159263 TATTGTATTT
*
8159273 TTATCTCCTTAAATTTTTATAAGTTCA
1 TTATCTCCTTAAATTTTTAAAAGTTCA
8159300 TTATCTCC-TACAA-TTTTAAAAGTTCA
1 TTATCTCCTTA-AATTTTTAAAAGTTCA
8159326 T
1 T
8159327 CATCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (27 bp):
TTATCTCCTTAAATTTTTAAAAGTTCA
Found at i:8160041 original size:41 final size:40
Alignment explanation
Indices: 8159977--8160259 Score: 206
Period size: 41 Copynumber: 6.9 Consensus size: 40
8159967 TTAACAAACG
* * * * *
8159977 TAAACGCCGGTATACACTTGTACTTTAGCGGTGTTTTTTATA
1 TAAACGCCGCTAAATAC-TGTACTTTAGTGGCG-TTTTTATA
* *
8160019 TAAACGTCGCTAAATACTGTACTTTAGTGGCGTTTTTGTA
1 TAAACGCCGCTAAATACTGTACTTTAGTGGCGTTTTTATA
* * * * *
8160059 TAAATGCCACTAAATATTGTACTTTAGTGGCGTTTTAAGCA
1 TAAACGCCGCTAAATACTGTACTTTAGTGGCGTTTTTA-TA
* * * *
8160100 CAAACGCCGCTAAATACTATACTTTAGTGGCATTTGTATA
1 TAAACGCCGCTAAATACTGTACTTTAGTGGCGTTTTTATA
* * ** * * *
8160140 CAAACGCCGCCAAGGAGTCATACTTTAGTGCCGTTTTTATA
1 TAAACGCCGCTAAATACT-GTACTTTAGTGGCGTTTTTATA
* * ** *
8160181 CAAACGCCGCTAAAGACCCATACTTTAGTGGCATTTTTATA
1 TAAACGCCGCTAAATA-CTGTACTTTAGTGGCGTTTTTATA
* * * * * *
8160222 CAAACACCACCAAAGACTCGTACTTTAGTGGTGTTTTT
1 TAAACGCCGCTAAATACT-GTACTTTAGTGGCGTTTTT
8160260 TGAATAAACG
Statistics
Matches: 194, Mismatches: 43, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
40 55 0.28
41 126 0.65
42 13 0.07
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (40 bp):
TAAACGCCGCTAAATACTGTACTTTAGTGGCGTTTTTATA
Found at i:8160184 original size:81 final size:80
Alignment explanation
Indices: 8160011--8160251 Score: 266
Period size: 82 Copynumber: 3.0 Consensus size: 80
8160001 TTAGCGGTGT
* * * * * * * * *
8160011 TTTTTATATAAACGTCGCTAAATACTGTACTTTAGTGGCGTTTTTGTATAAATGCCACTAAATAT
1 TTTTTATACAAACGCCGCTAAATACTATACTTTAGTGGCATTTTTATACAAACGCCACCAAAGAT
* *
8160076 TGTACTTTAGTGGCG
66 CGTACTTTAGTGCCG
* * * * *
8160091 TTTTAAGCACAAACGCCGCTAAATACTATACTTTAGTGGCATTTGTATACAAACGCCGCCAAGGA
1 TTTTTA-TACAAACGCCGCTAAATACTATACTTTAGTGGCATTTTTATACAAACGCCACCAAAGA
*
8160156 GTCATACTTTAGTGCCG
65 -TCGTACTTTAGTGCCG
* * *
8160173 TTTTTATACAAACGCCGCTAAAGACCCATACTTTAGTGGCATTTTTATACAAACACCACCAAAGA
1 TTTTTATACAAACGCCGCTAAATA-CTATACTTTAGTGGCATTTTTATACAAACGCCACCAAAGA
8160238 CTCGTACTTTAGTG
65 -TCGTACTTTAGTG
8160252 GTGTTTTTTG
Statistics
Matches: 131, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
80 5 0.04
81 61 0.47
82 65 0.50
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (80 bp):
TTTTTATACAAACGCCGCTAAATACTATACTTTAGTGGCATTTTTATACAAACGCCACCAAAGAT
CGTACTTTAGTGCCG
Found at i:8160258 original size:82 final size:80
Alignment explanation
Indices: 8159996--8160259 Score: 276
Period size: 81 Copynumber: 3.2 Consensus size: 80
8159986 GTATACACTT
* * * * * * * *
8159996 GTACTTTAGCGGTGTTTTTTATATAAACGTCGCTAAATACTGTACTTTAGTGGCGTTTTTGTATA
1 GTACTTTAGTGGCG-TTTTTATACAAACGCCGCTAAATACTATACTTTAGTGGCATTTTTATACA
* * * *
8160061 AATGCCACTAAATATT
65 AACGCCACCAAAGATC
* * *
8160077 GTACTTTAGTGGCGTTTTAAGCACAAACGCCGCTAAATACTATACTTTAGTGGCATTTGTATACA
1 GTACTTTAGTGGCGTTTTTA-TACAAACGCCGCTAAATACTATACTTTAGTGGCATTTTTATACA
* *
8160142 AACGCCGCCAAGGAGTC
65 AACGCCACCAAAGA-TC
* * * *
8160159 ATACTTTAGTGCCGTTTTTATACAAACGCCGCTAAAGACCCATACTTTAGTGGCATTTTTATACA
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAATA-CTATACTTTAGTGGCATTTTTATACA
*
8160224 AACACCACCAAAGACTC
65 AACGCCACCAAAGA-TC
*
8160241 GTACTTTAGTGGTGTTTTT
1 GTACTTTAGTGGCGTTTTT
8160260 TGAATAAACG
Statistics
Matches: 149, Mismatches: 31, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
80 5 0.03
81 73 0.49
82 71 0.48
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (80 bp):
GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAATACTATACTTTAGTGGCATTTTTATACAA
ACGCCACCAAAGATC
Found at i:8164002 original size:43 final size:42
Alignment explanation
Indices: 8163955--8164410 Score: 536
Period size: 43 Copynumber: 10.7 Consensus size: 42
8163945 ATAGGTCAAG
**
8163955 ATCTATAGCGGCGTTTTTTTTAA-AAACGCCGCAAAAGGTCGAT
1 ATCTATAGCGGCG-TTTTTGGAACAAACGCCGCAAAAGGTC-AT
* * * *
8163998 ATCTATAGCGGCATTTTTTGAACAAACGTCGCAAAAAGTCTAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AT
** *
8164041 ATCTATAGCGGCGTTTTTGGAACAAACGCCATAAAAGGTCGAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AT
* *
8164084 ATCTATAGCGACGTTTTTGGAACAAACGCCGCAAAATGTCAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAT
* * *** *
8164126 ATCTATAGTGGTGTTTTTGGAACAAACGCCTTGAAAGGTCGAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AT
* *
8164169 ATCTATAGCGGCGTTTTTGAAACAAATGCCGCAAAAGGTCAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAT
*
8164211 ATCTATAGCGGCGTTTTTGGATACAAACACCGCAAAAGGTCAT
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAT
* * * * * *
8164254 ATATATAACGGCATTTTTGGAACAAATGCCGTAAAAGGTCGAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AT
* * *
8164297 ATCTATAGCAGTGTTTTTGGAACAAACGCCGTAAAAGGTCAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAT
* *
8164339 ATTTATAGTGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAT
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAT
*
8164382 ATCTATAGCGGCATTTTTGGATACAAACG
1 ATCTATAGCGGCGTTTTTGGA-ACAAACG
8164411 TCGTTGATTA
Statistics
Matches: 349, Mismatches: 59, Indels: 10
0.83 0.14 0.02
Matches are distributed among these distances:
42 97 0.28
43 252 0.72
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAT
Found at i:8164155 original size:85 final size:85
Alignment explanation
Indices: 8163955--8164410 Score: 558
Period size: 85 Copynumber: 5.3 Consensus size: 85
8163945 ATAGGTCAAG
** * * *
8163955 ATCTATAGCGGCGTTTTTTTTAA-AAACGCCGCAAAAGGTCGATATCTATAGCGGCATTTTTTGA
1 ATCTATAGCGGCG-TTTTTGGAACAAACGCCGTAAAAGGTCGATATCTATAGCGGCGTTTTTGGA
* *
8164019 ACAAACGTCGCAAAAAGTCTAT
65 ACAAACGCCGCAAAAGGTC-AT
* * *
8164041 ATCTATAGCGGCGTTTTTGGAACAAACGCCATAAAAGGTCGAGATCTATAGCGACGTTTTTGGAA
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGTAAAAGGTCGATATCTATAGCGGCGTTTTTGGAA
*
8164106 CAAACGCCGCAAAATGTCAT
66 CAAACGCCGCAAAAGGTCAT
* * * * * *
8164126 ATCTATAGTGGTGTTTTTGGAACAAACGCCTTGAAAGGTCGAGATCTATAGCGGCGTTTTTGAAA
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGTAAAAGGTCGATATCTATAGCGGCGTTTTTGGAA
*
8164191 CAAATGCCGCAAAAGGTCAT
66 CAAACGCCGCAAAAGGTCAT
* * * * *
8164211 ATCTATAGCGGCGTTTTTGGATACAAACACCGCAAAAGGTC-ATATATATAACGGCATTTTTGGA
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGTAAAAGGTCGATATCTATAGCGGCGTTTTTGGA
* * *
8164275 ACAAATGCCGTAAAAGGTCGAG
65 ACAAACGCCGCAAAAGGTC-AT
* * * *
8164297 ATCTATAGCAGTGTTTTTGGAACAAACGCCGTAAAAGGTC-ATATTTATAGTGGCGTTTTTGGAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGTAAAAGGTCGATATCTATAGCGGCGTTTTTGGA-
8164361 ACAAACGCCGCAAAAGGTCAT
65 ACAAACGCCGCAAAAGGTCAT
*
8164382 ATCTATAGCGGCATTTTTGGATACAAACG
1 ATCTATAGCGGCGTTTTTGGA-ACAAACG
8164411 TCGTTGATTA
Statistics
Matches: 320, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
85 196 0.61
86 124 0.39
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (85 bp):
ATCTATAGCGGCGTTTTTGGAACAAACGCCGTAAAAGGTCGATATCTATAGCGGCGTTTTTGGAA
CAAACGCCGCAAAAGGTCAT
Found at i:8164176 original size:128 final size:128
Alignment explanation
Indices: 8163947--8164410 Score: 608
Period size: 128 Copynumber: 3.6 Consensus size: 128
8163937 ATGCCTCCAT
** *
8163947 AGGTCAAGATCTATAGCGGCGTTTTT-TTTAAAAACGCCGCAAAAGGTCGATATCTATAGCGGCA
1 AGGTC-AGATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTC-ATATCTATAGCGGCA
* * * * * * *
8164011 TTTTTTGAACAAACGTCGCAAAAAGTCTATATCTATAGCGGCGTTTTTGGAACAAACGCCATAAA
64 TTTTTGGAACAAACGCCGTAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGTAAA
* * * **
8164076 AGGTCGAGATCTATAGCGACGTTTTTGGA-ACAAACGCCGCAAAATGTCATATCTATAGTGGTGT
1 AGGTC-AGATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCATATCTATAGCGGCAT
* * * * *
8164140 TTTTGGAACAAACGCCTTGAAAGGTCGAGATCTATAGCGGCGTTTTTGAAACAAATGCCGCAAA
65 TTTTGGAACAAACGCCGTAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGTAAA
* * * *
8164204 AGGTCATATCTATAGCGGCGTTTTTGGATACAAACACCGCAAAAGGTCATATATATAACGGCATT
1 AGGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCATATCTATAGCGGCATT
* * *
8164269 TTTGGAACAAATGCCGTAAAAGGTCGAGATCTATAGCAGTGTTTTTGGAACAAACGCCGTAAA
66 TTTGGAACAAACGCCGTAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGTAAA
* * *
8164332 AGGTCATATTTATAGTGGCGTTTTTGGATACAAACGCCGCAAAAGGTCATATCTATAGCGGCATT
1 AGGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCATATCTATAGCGGCATT
8164397 TTTGGATACAAACG
66 TTTGGA-ACAAACG
8164411 TCGTTGATTA
Statistics
Matches: 288, Mismatches: 44, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
127 21 0.07
128 220 0.76
129 47 0.16
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (128 bp):
AGGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCATATCTATAGCGGCATT
TTTGGAACAAACGCCGTAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGTAAA
Found at i:8166128 original size:29 final size:29
Alignment explanation
Indices: 8166094--8166152 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
8166084 CCTAAATTAA
8166094 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
8166123 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
8166152 T
1 T
8166153 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:8170759 original size:29 final size:29
Alignment explanation
Indices: 8170725--8170783 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
8170715 CCTAAATTAA
*
8170725 TTTGATGTCATTGTTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
8170754 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
8170783 T
1 T
8170784 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.51
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:8171723 original size:16 final size:16
Alignment explanation
Indices: 8171702--8171734 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8171692 TAAAAAATAA
8171702 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
8171718 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
8171734 A
1 A
8171735 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:8171826 original size:16 final size:16
Alignment explanation
Indices: 8171805--8171865 Score: 113
Period size: 16 Copynumber: 3.8 Consensus size: 16
8171795 TAATAAATAA
8171805 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
8171821 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
8171837 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
8171853 ACGAACATAAACG
1 ACGAACATAAACG
8171866 TTGGAGACCC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Done.