Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 125 of 335
Found at i:37703811 original size:29 final size:29
Alignment explanation
Indices: 37703767--37703824 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
37703757 TTTATAGTTG
* *
37703767 GAATGAACATAGTAATAAAATTCAAACTT
1 GAATGAAAATAATAATAAAATTCAAACTT
*
37703796 GAATGAAAATAATAATAAAATTTAAACTT
1 GAATGAAAATAATAATAAAATTCAAACTT
37703825 CTTTATGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (29 bp):
GAATGAAAATAATAATAAAATTCAAACTT
Found at i:37706557 original size:20 final size:19
Alignment explanation
Indices: 37706532--37706570 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37706522 AATCAAGTTG
37706532 TGAGTTAAAAATTTACAATT
1 TGAGTT-AAAATTTACAATT
* *
37706552 TGAGTTGAATTTTACAATT
1 TGAGTTAAAATTTACAATT
37706571 CGAACAACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (19 bp):
TGAGTTAAAATTTACAATT
Found at i:37706631 original size:10 final size:10
Alignment explanation
Indices: 37706618--37706688 Score: 60
Period size: 11 Copynumber: 7.2 Consensus size: 10
37706608 ATTTTTATGT
37706618 AAAATTATAA
1 AAAATTATAA
*
37706628 AAAATTCAAAA
1 AAAATT-ATAA
*
37706639 AAAAATATTAA
1 AAAATTA-TAA
37706650 AAAATTAT-A
1 AAAATTATAA
37706659 AAAA-TATAAA
1 AAAATTAT-AA
*
37706669 AAAAGT-TAA
1 AAAATTATAA
37706678 AAAATTA-AA
1 AAAATTATAA
37706687 AA
1 AA
37706689 CTTTCTACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
8 3 0.06
9 16 0.32
10 14 0.28
11 17 0.34
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (10 bp):
AAAATTATAA
Found at i:37706651 original size:8 final size:8
Alignment explanation
Indices: 37706625--37706688 Score: 60
Period size: 8 Copynumber: 7.8 Consensus size: 8
37706615 TGTAAAATTA
37706625 TAAAAAAT
1 TAAAAAAT
*
37706633 TCAAAAA-
1 TAAAAAAT
*
37706640 -AAAATAT
1 TAAAAAAT
37706647 TAAAAAAT
1 TAAAAAAT
37706655 TATAAAAAT
1 TA-AAAAAT
37706664 ATAAAAAAAGT
1 -T-AAAAAA-T
37706675 TAAAAAAT
1 TAAAAAAT
37706683 TAAAAA
1 TAAAAA
37706689 CTTTCTACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
6 4 0.09
8 21 0.46
9 12 0.26
10 7 0.15
11 2 0.04
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (8 bp):
TAAAAAAT
Found at i:37706663 original size:19 final size:18
Alignment explanation
Indices: 37706639--37706688 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
37706629 AAATTCAAAA
*
37706639 AAAAATATTAAAAAATTAT
1 AAAAATATTAAAAAAGT-T
*
37706658 AAAAATATAAAAAAAGTT
1 AAAAATATTAAAAAAGTT
37706676 AAAAA-ATTAAAAA
1 AAAAATATTAAAAA
37706689 CTTTCTACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 7 0.25
18 6 0.21
19 15 0.54
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAATATTAAAAAAGTT
Found at i:37711350 original size:3 final size:3
Alignment explanation
Indices: 37711333--37711395 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
37711323 TGCAGCAACA
* * *
37711333 AAG AGAG AA- AAG AAG AAG AAA AAG AAG AAT AAG AAG AAG AAG GAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
37711378 AAG GAG GAG AAAG AAG AA
1 AAG AAG AAG -AAG AAG AA
37711396 AAAAATGTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.86
4 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:37712484 original size:11 final size:11
Alignment explanation
Indices: 37712449--37712476 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
37712439 GAGAGTAAGA
37712449 AATTTTAATGT
1 AATTTTAATGT
37712460 AATTTTAATGT
1 AATTTTAATGT
37712471 AATTTT
1 AATTTT
37712477 GATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Found at i:37714104 original size:12 final size:12
Alignment explanation
Indices: 37714087--37714147 Score: 70
Period size: 12 Copynumber: 5.1 Consensus size: 12
37714077 TGCACTAACT
*
37714087 CCAGAGCCAGAG
1 CCAGAGCCGGAG
37714099 CCAGAGCCGGAG
1 CCAGAGCCGGAG
* * *
37714111 GCAGTGCCGGAC
1 CCAGAGCCGGAG
37714123 CCAGAG-CGGCAG
1 CCAGAGCCGG-AG
37714135 CCAGAGCCGGAG
1 CCAGAGCCGGAG
37714147 C
1 C
37714148 TACACTCAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 3 0.08
12 34 0.85
13 3 0.08
ACGTcount: A:0.25, C:0.34, G:0.39, T:0.02
Consensus pattern (12 bp):
CCAGAGCCGGAG
Found at i:37718344 original size:19 final size:17
Alignment explanation
Indices: 37718321--37718362 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
37718311 TAAAATATAA
* *
37718321 TAAAATAATAATATT-T
1 TAAAAAAATTATATTAT
37718337 TAAAAAAATTATATTAT
1 TAAAAAAATTATATTAT
37718354 TAAAAAAAT
1 TAAAAAAAT
37718363 GGGTCGCGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAAAATTATATTAT
Found at i:37719018 original size:6 final size:6
Alignment explanation
Indices: 37719007--37719032 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37718997 CATCCTAAGG
37719007 GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GT
37719033 CGCGGTACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:37719418 original size:3 final size:3
Alignment explanation
Indices: 37719410--37719498 Score: 178
Period size: 3 Copynumber: 29.7 Consensus size: 3
37719400 ATTCAATACC
37719410 ATA ATA ATA ATA ATA ATA ATA 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
37719458 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
37719499 GATACTTACC
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:37720136 original size:17 final size:19
Alignment explanation
Indices: 37720102--37720139 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
37720092 AAACCTTTAA
37720102 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
37720121 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
37720138 TT
1 TT
37720140 CCTTCCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:37722594 original size:43 final size:42
Alignment explanation
Indices: 37722546--37722689 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 42
37722536 CCAGACGTAA
*
37722546 TCTTACATGTAATCAAATAACGATGCCACTGTCCCAGACAGGG
1 TCTTACATGAAATCAAAT-ACGATGCCACTGTCCCAGACAGGG
* *
37722589 TCTTACATGAAATCAAATACGATGGCGA-TGTCCCAGACACGG
1 TCTTACATGAAATCAAATACGAT-GCCACTGTCCCAGACAGGG
*
37722631 TCTTACACGTAAATTTCAAAT-CGATGCCAAC-GTCCCAGAC-GTGG
1 TCTTACATG-AAA--TCAAATACGATGCC-ACTGTCCCAGACAG-GG
37722675 TCTTACATGAAATCA
1 TCTTACATGAAATCA
37722690 CATATCGGAA
Statistics
Matches: 87, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
41 3 0.03
42 26 0.30
43 28 0.32
44 24 0.28
45 6 0.07
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
TCTTACATGAAATCAAATACGATGCCACTGTCCCAGACAGGG
Found at i:37722624 original size:42 final size:42
Alignment explanation
Indices: 37722546--37722689 Score: 157
Period size: 42 Copynumber: 3.4 Consensus size: 42
37722536 CCAGACGTAA
* * *
37722546 TCTTACATGTAATCAAATAACGATGCCACTGTCCCAGACAGGG
1 TCTTACATGAAATCAAAT-ACGATGGCAATGTCCCAGACAGGG
* *
37722589 TCTTACATGAAATCAAATACGATGGCGATGTCCCAGACACGG
1 TCTTACATGAAATCAAATACGATGGCAATGTCCCAGACAGGG
* * *
37722631 TCTTACACGTAAATTTCAAAT-CGATGCCAACGTCCCAGAC-GTGG
1 TCTTACATG-AAA--TCAAATACGATGGCAATGTCCCAGACAG-GG
37722675 TCTTACATGAAATCA
1 TCTTACATGAAATCA
37722690 CATATCGGAA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
41 3 0.03
42 28 0.33
43 23 0.27
44 26 0.30
45 6 0.07
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
TCTTACATGAAATCAAATACGATGGCAATGTCCCAGACAGGG
Found at i:37725638 original size:26 final size:26
Alignment explanation
Indices: 37725602--37725651 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
37725592 AGTATTATAA
37725602 ATATTTCTATTGATAAATAAAAATGC
1 ATATTTCTATTGATAAATAAAAATGC
37725628 ATATTTCTATTGATAAATAAAAAT
1 ATATTTCTATTGATAAATAAAAAT
37725652 TCTCTAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (26 bp):
ATATTTCTATTGATAAATAAAAATGC
Found at i:37728478 original size:3 final size:3
Alignment explanation
Indices: 37728462--37728495 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
37728452 GCGCAAGACA
37728462 TAT TAT T-T TCAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT T
37728496 TATTCGTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.86
4 2 0.07
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37728728 original size:13 final size:13
Alignment explanation
Indices: 37728712--37728736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37728702 TTTTCCTTAA
37728712 TATTTATTTATTG
1 TATTTATTTATTG
37728725 TATTTATTTATT
1 TATTTATTTATT
37728737 TATCCCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TATTTATTTATTG
Found at i:37728766 original size:3 final size:3
Alignment explanation
Indices: 37728758--37728788 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
37728748 TCACATAAAC
37728758 ATT ATT ATT ATT ATT ATT ATT ATT AATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
37728789 TTTTTACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:37735541 original size:44 final size:43
Alignment explanation
Indices: 37735358--37735640 Score: 214
Period size: 44 Copynumber: 6.6 Consensus size: 43
37735348 AAAAATCCTA
* * * * *
37735358 TCTCCCTAAGTAGTAGTGGAGTAGGCTAAAGATTACAGATCATG
1 TCTCCCTAAGCAGTAGTGGAGCAGGCTGAAGACTAC-GATCTTG
* * * * *
37735402 TCTTCTTAAGCAGTAGTGGAGCAGGTTGAATACGACGAATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGGCTGAAGACTACG-ATCTTG
** * * * * *
37735446 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CTACCACCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGGCTGAAGACTACGATCTTG
* * *
37735488 TCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTACAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGGCTGAAGACTAC-GATCTTG
* ** * * * *
37735532 TCTCCCTAAGTAGTAGTGGAGCAGATTTAAG-CCACCATC-TA
1 TCTCCCTAAGCAGTAGTGGAGCAGGCTGAAGACTACGATCTTG
* * *
37735573 TCTCCTTAAGCAGTAGTGGAGTAGGCTGAAGATTGTA-GATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGGCTGAAGA--CTACGATCTTG
*
37735617 TCTCTCTAAGCAGTAGTGGAGCAG
1 TCTCCCTAAGCAGTAGTGGAGCAG
37735641 ATTTAAGCCA
Statistics
Matches: 181, Mismatches: 51, Indels: 14
0.74 0.21 0.06
Matches are distributed among these distances:
41 26 0.14
42 32 0.18
43 12 0.07
44 111 0.61
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
TCTCCCTAAGCAGTAGTGGAGCAGGCTGAAGACTACGATCTTG
Found at i:37735614 original size:85 final size:84
Alignment explanation
Indices: 37735406--37735661 Score: 343
Period size: 85 Copynumber: 3.0 Consensus size: 84
37735396 ATCATGTCTT
* * * *
37735406 CTTAAGCAGTAGTGGAGCAGGTTGAATA-CGACGAATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
1 CTTAAGCAGTAGTGGAGTAGGCTGAAGATTGA-G-ATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
* *
37735470 ATTTAAGCTACCACCCTATCTC
64 ATTTAAGCCACCA-TCTATCTC
* * * *
37735492 CCTAAGTAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGA
1 CTTAAGCAGTAGTGGAGTAGGCTGAAGATT-GAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
37735557 TTTAAGCCACCATCTATCTC
65 TTTAAGCCACCATCTATCTC
*
37735577 CTTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCTCTAAGCAGTAGTGGAGCAGA
1 CTTAAGCAGTAGTGGAGTAGGCTGAAGATTG-AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
*
37735642 TTTAAGCCACCGTCCTATCT
65 TTTAAGCCACCAT-CTATCT
37735662 TCCTGAGTAG
Statistics
Matches: 150, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
85 78 0.52
86 70 0.47
87 1 0.01
88 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (84 bp):
CTTAAGCAGTAGTGGAGTAGGCTGAAGATTGAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGAT
TTAAGCCACCATCTATCTC
Found at i:37735768 original size:44 final size:44
Alignment explanation
Indices: 37735720--37735945 Score: 115
Period size: 44 Copynumber: 5.1 Consensus size: 44
37735710 GAAATTCTAG
*
37735720 TGGAGTAGGTCGAAGTTACAAATCTCTTCTCCCTAAAATGGTAT
1 TGGAGTAGGTCGAAGTTACAAATCTCTTCTCCCTGAAATGGTAT
* ** * * * * *
37735764 TGGAG-CGGCTCGAAGCCACAATTCGTC-TCTCCTTGAAGT-TTCAG
1 TGGAGTAGG-TCGAAGTTACAAATC-TCTTCTCCCTGAAATGGT-AT
* * * *
37735808 TAGAGTAGATTGAAGTTATAAATCTCTTCTCCCTGAAATGGTAT
1 TGGAGTAGGTCGAAGTTACAAATCTCTTCTCCCTGAAATGGTAT
** * * ** *
37735852 TGGA--ACGGCTCGAAGCCAC-AAT-TCGTATCTCCTTGAAGTTCTAG
1 TGGAGTA-GG-TCGAAGTTACAAATCTC-T-TCTCCCTGAAATGGTAT
* * * * *
37735896 CGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTTAAATGGCAT
1 TGGAGTAGGTCGAAGTTACAAATCTCTTCTCCCTGAAATGGTAT
37735940 TGGAGT
1 TGGAGT
37735946 GACTCAAAGC
Statistics
Matches: 125, Mismatches: 43, Indels: 28
0.64 0.22 0.14
Matches are distributed among these distances:
42 3 0.02
43 10 0.08
44 100 0.80
45 9 0.07
46 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (44 bp):
TGGAGTAGGTCGAAGTTACAAATCTCTTCTCCCTGAAATGGTAT
Found at i:37735795 original size:88 final size:88
Alignment explanation
Indices: 37735693--37736373 Score: 875
Period size: 88 Copynumber: 7.8 Consensus size: 88
37735683 GTTGAAATCA
* * * * * *
37735693 ACAATTCTTATCTCCTTGAAATTCTAGTGGAGTAGGTCGAAGTTACAAATCTCTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
37735758 TGGTATTGGAGCGGCTCGAAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
* ** * * *
37735781 ACAATTCGTCTCTCCTTGAAGTT-TCAGTAGAGTAGATTGAAGTTATAAATCTCTTCTCCCTGAA
1 ACAATTCGTATCTCCTTGAAGTTCT-AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
* *
37735845 ATGGTATTGGAACGGCTCGAAGCC
65 ATGGCATTGGAGCGGCTCGAAGCC
*
37735869 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTTAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * *
37735934 TGGCATTGGAGTGACTCAAAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
* * * * *
37735957 ACAATTCGTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGTTACAAATTTCTTCTCCTTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * *
37736022 TTGCATTGGAGTGGCTCAAAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
* ** * * *
37736045 ACAATTCGTATCTCTTTGAAGTT-TCAATGGAGTAGATCGAAGCTACAAATCTTTTCTCCTTAAA
1 ACAATTCGTATCTCCTTGAAGTTCT-AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
37736109 ATGGCATTGGAGCGGCTCGAAGCC
65 ATGGCATTGGAGCGGCTCGAAGCC
* *
37736133 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTAGAAATCTCTTCTCTCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
37736198 TGGCAATGGAGCGGCTCGAAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
* * * * * * *
37736221 ATAATTCATATCTCTTTGAAGTTCCAGCGGAGTAAATCGAAACTACAAATCTCTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
37736286 TGGCATTGGAGCGGCTCGTAGCC
66 TGGCATTGGAGCGGCTCGAAGCC
** * *
37736309 ACAATTCGTATCTCCTTGAAGTT-TCA-ATGAGTAGATCGAAGCTAGAAATCTCTTCTTCCTGAA
1 ACAATTCGTATCTCCTTGAAGTTCT-AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
37736372 AT
65 AT
37736374 TACAATGGAA
Statistics
Matches: 516, Mismatches: 72, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
87 33 0.06
88 481 0.93
89 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (88 bp):
ACAATTCGTATCTCCTTGAAGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCATTGGAGCGGCTCGAAGCC
Found at i:37736147 original size:44 final size:44
Alignment explanation
Indices: 37735755--37736328 Score: 213
Period size: 44 Copynumber: 13.0 Consensus size: 44
37735745 CTTCTCCCTA
* * *
37735755 AAATGGTATTGGAGCGGCTCGAAGCCACAATTCGTCTCTCCTTG
1 AAATGGCATTGGAGTGGCTCGAAGCCACAATTCGTATCTCCTTG
* ** * * * * * ** * *
37735799 AAGTTTCAGTAGAGTAGATTGAAGTTATAAATCTC-T-TCTCCCTG
1 AAATGGCATTGGAGTGGCTCGAAGCCA-CAAT-TCGTATCTCCTTG
* **
37735843 AAATGGTATTGGAACGGCTCGAAGCCACAATTCGTATCTCCTTG
1 AAATGGCATTGGAGTGGCTCGAAGCCACAATTCGTATCTCCTTG
* * ** * * *
37735887 AAGT-TCTAGCGGAGTAGATCGAAGCTACAAATCTC-T-TCTCCCTT-
1 AAATGGC-ATTGGAGTGGCTCGAAGCCAC-AAT-TCGTATCT-CCTTG
* *
37735931 AAATGGCATTGGAGTGACTCAAAGCCACAATTCGTATCTCCTTG
1 AAATGGCATTGGAGTGGCTCGAAGCCACAATTCGTATCTCCTTG
* ** *** * * **
37735975 AAGTTCCAGCAGAGTAGATCGAAGTTACAAATTTC-T-TCTCCTTG
1 AAATGGCATTGGAGTGGCTCGAAGCCAC-AA-TTCGTATCTCCTTG
* * *
37736019 AAATTGCATTGGAGTGGCTCAAAGCCACAATTCGTATCTCTTTG
1 AAATGGCATTGGAGTGGCTCGAAGCCACAATTCGTATCTCCTTG
* ** * * * * * * * *
37736063 AAGTTTCAATGGAGTAGATCGAAGCTACAAATCTTTTCTCCTTA
1 AAATGGCATTGGAGTGGCTCGAAGCCACAATTCGTATCTCCTTG
*
37736107 AAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTG
1 AAATGGCATTGGAGTGGCTCGAAGCCACAATTCGTATCTCCTTG
* * ** * * * *
37736151 AAGT-TCTAGCGGAGTAGATCGAAGCTAGAAATCTC-T-TCT-CTCTG
1 AAATGGC-ATTGGAGTGGCTCGAAGCCA-CAAT-TCGTATCTCCT-TG
* * * * *
37736195 AAATGGCAATGGAGCGGCTCGAAGCCATAATTCATATCTCTTTG
1 AAATGGCATTGGAGTGGCTCGAAGCCACAATTCGTATCTCCTTG
* ** ** *** * * * *
37736239 AAGTTCCAGCGGAGTAAATCGAAACTACAAATCTC-T-TCTCCCTA
1 AAATGGCATTGGAGTGGCTCGAAGCCAC-AAT-TCGTATCTCCTTG
* *
37736283 AAATGGCATTGGAGCGGCTCGTAGCCACAATTCGTATCTCCTTG
1 AAATGGCATTGGAGTGGCTCGAAGCCACAATTCGTATCTCCTTG
37736327 AA
1 AA
37736329 GTTTCAATGA
Statistics
Matches: 359, Mismatches: 143, Indels: 56
0.64 0.26 0.10
Matches are distributed among these distances:
42 11 0.03
43 26 0.07
44 285 0.79
45 26 0.07
46 11 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
AAATGGCATTGGAGTGGCTCGAAGCCACAATTCGTATCTCCTTG
Found at i:37736163 original size:264 final size:263
Alignment explanation
Indices: 37735693--37736373 Score: 975
Period size: 264 Copynumber: 2.6 Consensus size: 263
37735683 GTTGAAATCA
* * * * *
37735693 ACAATTCTTATCTCCTTGAAATTCTAGTGGAGTAGGTCGAAGTTACAAATCTCTTCTCCCTAAAA
1 ACAATTCATATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGTTACAAATCTCTTCTCCCTAAAA
* * * *
37735758 TGGTATTGGAGCGGCTCGAAGCCACAATTCGTCTCTCCTTGAAGTTTCAGTAGAGTAGATTGAAG
66 TGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAAT-GAGTAGATCGAAG
* * * *
37735823 TTATAAATCTCTTCTCCCTGAAATGGTATTGGAACGGCTCGAAGCCACAATTCGTATCTCCTTGA
130 CTACAAATCTCTTCTCCCTAAAATGGCATTGGAACGGCTCGAAGCCACAATTCGTATCTCCTTGA
* * *
37735888 AGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTTAAATGGCATTGGAGTGACTCAA
195 AGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAATGGAGCGACTCAA
37735953 AGCC
260 AGCC
* * * * *
37735957 ACAATTCGTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGTTACAAATTTCTTCTCCTTGAAA
1 ACAATTCATATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGTTACAAATCTCTTCTCCCTAAAA
* * * *
37736022 TTGCATTGGAGTGGCTCAAAGCCACAATTCGTATCTCTTTGAAGTTTCAATGGAGTAGATCGAAG
66 TGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAAT-GAGTAGATCGAAG
* * *
37736087 CTACAAATCTTTTCTCCTTAAAATGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGA
130 CTACAAATCTCTTCTCCCTAAAATGGCATTGGAACGGCTCGAAGCCACAATTCGTATCTCCTTGA
* * * *
37736152 AGTTCTAGCGGAGTAGATCGAAGCTAGAAATCTCTTCTCTCTGAAATGGCAATGGAGCGGCTCGA
195 AGTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAATGGAGCGACTCAA
37736217 AGCC
260 AGCC
* * * **
37736221 ATAATTCATATCTCTTTGAAGTTCCAGCGGAGTAAATCGAAACTACAAATCTCTTCTCCCTAAAA
1 ACAATTCATATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGTTACAAATCTCTTCTCCCTAAAA
*
37736286 TGGCATTGGAGCGGCTCGTAGCCACAATTCGTATCTCCTTGAAGTTTCAATGAGTAGATCGAAGC
66 TGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAATGAGTAGATCGAAGC
* * *
37736351 TAGAAATCTCTTCTTCCTGAAAT
131 TACAAATCTCTTCTCCCTAAAAT
37736374 TACAATGGAA
Statistics
Matches: 365, Mismatches: 52, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
263 32 0.09
264 333 0.91
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (263 bp):
ACAATTCATATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGTTACAAATCTCTTCTCCCTAAAA
TGGCATTGGAGCGGCTCGAAGCCACAATTCGTATCTCCTTGAAGTTTCAATGAGTAGATCGAAGC
TACAAATCTCTTCTCCCTAAAATGGCATTGGAACGGCTCGAAGCCACAATTCGTATCTCCTTGAA
GTTCTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAATGGAGCGACTCAAA
GCC
Found at i:37736958 original size:43 final size:44
Alignment explanation
Indices: 37736866--37736958 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
37736856 TGTCAGGTTT
* * *
37736866 TATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAATCT
1 TATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGCAACCC
*
37736910 TATCTCCCTGAAGTTGCAGCGG-GTAGATTGAA-ACTA-CAAGCCC
1 TATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGA-TAGCAA-CCC
37736953 TATCTC
1 TATCTC
37736959 TATGAATGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
42 4 0.09
43 18 0.42
44 21 0.49
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGCAACCC
Found at i:37738705 original size:3 final size:3
Alignment explanation
Indices: 37738697--37738736 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
37738687 GCGCAAGACA
37738697 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37738737 TATTCGTCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37738968 original size:13 final size:13
Alignment explanation
Indices: 37738952--37738976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37738942 TTTTCCTTAA
37738952 TATTTATTTATTG
1 TATTTATTTATTG
37738965 TATTTATTTATT
1 TATTTATTTATT
37738977 TATCCCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TATTTATTTATTG
Found at i:37739006 original size:3 final size:3
Alignment explanation
Indices: 37738998--37739052 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
37738988 TCACATACAC
37738998 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
37739046 AATT ATT
1 -ATT ATT
37739053 TGTTTACATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:37748585 original size:23 final size:23
Alignment explanation
Indices: 37748542--37748585 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37748532 TAATACGTTG
* *
37748542 TTTTATTTATTATCTATTTTAGA
1 TTTTATATATTATCTAATTTAGA
*
37748565 TTTTATATATTATTTAATTTA
1 TTTTATATATTATCTAATTTA
37748586 AATTATATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTTATATATTATCTAATTTAGA
Found at i:37749025 original size:12 final size:11
Alignment explanation
Indices: 37748985--37749047 Score: 56
Period size: 12 Copynumber: 5.4 Consensus size: 11
37748975 AGAATTGTTC
37748985 TATTATTTATTT
1 TATTA-TTATTT
37748997 TA-TATTATTT
1 TATTATTATTT
*
37749007 GTTTTATTATTAT
1 -TATTATTATT-T
*
37749020 TATTATTATTA
1 TATTATTATTT
37749031 TACTTATTTATTT
1 TA-TTA-TTATTT
37749044 TATT
1 TATT
37749048 GTACTTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 6 0.14
11 5 0.12
12 23 0.55
13 8 0.19
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (11 bp):
TATTATTATTT
Found at i:37749037 original size:18 final size:18
Alignment explanation
Indices: 37748996--37749053 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
37748986 ATTATTTATT
*
37748996 TTATA-TTATTTGTTTTA
1 TTATACTTATTTATTTTA
37749013 -T-TA-TTA-TTATTATTA
1 TTATACTTATTTATT-TTA
37749028 TTATACTTATTTATTTTA
1 TTATACTTATTTATTTTA
*
37749046 TTGTACTT
1 TTATACTT
37749054 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 4 0.12
15 8 0.24
16 2 0.06
17 2 0.06
18 13 0.38
19 5 0.15
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATACTTATTTATTTTA
Found at i:37749046 original size:15 final size:14
Alignment explanation
Indices: 37748985--37749046 Score: 70
Period size: 14 Copynumber: 4.1 Consensus size: 14
37748975 AGAATTGTTC
37748985 TATTATTTATTTTA
1 TATTATTTATTTTA
*
37748999 TATTATTTGTTTTA
1 TATTATTTATTTTA
37749013 TTATTATTATTATTATTA
1 -TATTA-T-TTATT-TTA
37749031 TACTTATTTATTTTA
1 TA-TTATTTATTTTA
37749046 T
1 T
37749047 TGTACTTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 13 0.32
15 9 0.22
16 6 0.15
17 7 0.17
18 6 0.15
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (14 bp):
TATTATTTATTTTA
Found at i:37749082 original size:13 final size:13
Alignment explanation
Indices: 37749064--37749106 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
37749054 TCTTTTTACC
*
37749064 ATTTACTATTATT
1 ATTTACTATTTTT
37749077 ATTTACATATTTTT
1 ATTTAC-TATTTTT
37749091 ATTGTA-TATTTTT
1 ATT-TACTATTTTT
37749104 ATT
1 ATT
37749107 ATTATTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 16 0.59
14 9 0.33
15 2 0.07
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (13 bp):
ATTTACTATTTTT
Found at i:37755983 original size:25 final size:25
Alignment explanation
Indices: 37755949--37755998 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
37755939 CACAAACTCA
*
37755949 TAATTCAGGTAGATGTCTATTTAGT
1 TAATTCAGGTAGATGCCTATTTAGT
37755974 TAATTCAGGTAGATGCCTATTTAGT
1 TAATTCAGGTAGATGCCTATTTAGT
37755999 ATTGAACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (25 bp):
TAATTCAGGTAGATGCCTATTTAGT
Found at i:37764833 original size:90 final size:90
Alignment explanation
Indices: 37764666--37765023 Score: 328
Period size: 90 Copynumber: 4.1 Consensus size: 90
37764656 GCAATGTGTT
* * ** * ** *
37764666 CATTGTTTAAAAGTATGATTGTGATTAGTGATATTGTTTAAAAATGTGATTT-AGACTCAAATTG
1 CATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGA-TTGAATTC
** * *
37764730 GATTGTGACAATGGTAGTAAATTGTG
65 GATCATGATAATGGTAGCAAATTGTG
* *
37764756 CAGTGTTTAAAAGTGTGATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGATTGAATTCG
1 CATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGATTGAATTCG
*
37764821 ATCATGATAATGGTAGCGAATTGTG
66 ATCATGATAATGGTAGCAAATTGTG
* * * * *
37764846 CATTATTTAAAGGTATAGA-TGCGAATAG-T-GATTG-------GTACGATTTGGGATTGAATTC
1 CATTGTTTAAAAGTAT-GATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGATTGAATTC
*
37764901 GATCATGATAATGGTAGCAAATTATG
65 GATCATGATAATGGTAGCAAATTGTG
* * ** * *
37764927 CATTGTTTGAAGGCGTGGTTGTGATTAGTTATATTGTTTAAAAGTAAGATTTGGGATTGAATAT-
1 CATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGATTGAAT-TC
* *
37764991 GATCATTGATAA-GGTGGCGAATTGTG
65 GATCA-TGATAATGGTAGCAAATTGTG
37765017 CATTGTT
1 CATTGTT
37765024 GATTCGTTAT
Statistics
Matches: 218, Mismatches: 36, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
80 1 0.00
81 64 0.29
82 1 0.00
83 4 0.02
88 4 0.02
89 1 0.00
90 132 0.61
91 11 0.05
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.39
Consensus pattern (90 bp):
CATTGTTTAAAAGTATGATTGTGATTAGTTATATTGTTTAAAAGTACGATTTGGGATTGAATTCG
ATCATGATAATGGTAGCAAATTGTG
Found at i:37769702 original size:31 final size:30
Alignment explanation
Indices: 37769630--37769721 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
37769620 ACTTATTTTA
* *
37769630 TTGTT-AATTTTTTATTATTTTAAAGGTAT
1 TTGTTAAATTTTTTATTATTTTAGAGGCAT
37769659 TTGTTAAATTTTTTATTATTTTAGAGGCAT
1 TTGTTAAATTTTTTATTATTTTAGAGGCAT
37769689 TTGTTAAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAAA-TTTTTTATTATTTTAGAGGCAT
37769720 TT
1 TT
37769722 ACTTATTAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
29 5 0.08
30 30 0.51
31 24 0.41
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (30 bp):
TTGTTAAATTTTTTATTATTTTAGAGGCAT
Found at i:37775099 original size:26 final size:26
Alignment explanation
Indices: 37775070--37775177 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
37775060 TGGTACAAAT
*
37775070 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
37775096 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
37775122 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
37775148 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
37775174 TGAT
1 TGAT
37775178 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:37789388 original size:38 final size:38
Alignment explanation
Indices: 37789346--37789421 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
37789336 GTAGAAATAA
37789346 AGAAAAATTTTAATTTTGGTGACAACTCCAAATATGAT
1 AGAAAAATTTTAATTTTGGTGACAACTCCAAATATGAT
* *
37789384 AGAAAAATTTTAATTTTGGTGATAGCTCCAAATATGAT
1 AGAAAAATTTTAATTTTGGTGACAACTCCAAATATGAT
37789422 GGCACTAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (38 bp):
AGAAAAATTTTAATTTTGGTGACAACTCCAAATATGAT
Found at i:37789456 original size:2 final size:2
Alignment explanation
Indices: 37789439--37789496 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
37789429 GTGTCAGTAA
* *
37789439 AT AT AC AT AC 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
37789481 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
37789497 TTTGGGCACC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:37792105 original size:42 final size:42
Alignment explanation
Indices: 37791910--37792106 Score: 236
Period size: 41 Copynumber: 4.7 Consensus size: 42
37791900 CGTGTTTTAC
* * * * * *
37791910 TTTCTGTTTAGCTCTTATGAACTTCTGTTTAACTCATACGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
*
37791952 TTTCTGTTCAGTTC-TACGAGCTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
* * * * *
37791993 TTTCTATTCAACTC-TACAAGCTTTTGTTCAACTCCTATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
* ** *
37792034 TTTCTGCTCAGCTCTTATAAGCTTCTGTTCAACTCTTAAGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
37792076 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCA
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCA
37792107 GCTTTCGAGC
Statistics
Matches: 131, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
41 68 0.52
42 63 0.48
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
Found at i:37792117 original size:19 final size:21
Alignment explanation
Indices: 37791911--37792123 Score: 164
Period size: 21 Copynumber: 10.3 Consensus size: 21
37791901 GTGTTTTACT
* * *
37791911 TTCTGTTTAGCTCTTATGAAC
1 TTCTGTTCAGCTCTTACGAGC
* * * *
37791932 TTCTGTTTAACTCATACGAGT
1 TTCTGTTCAGCTCTTACGAGC
*
37791953 TTCTGTTCAGTTC-TACGAGC
1 TTCTGTTCAGCTCTTACGAGC
* * *
37791973 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
* * *
37791994 TTCTATTCAACTC-TACAAGC
1 TTCTGTTCAGCTCTTACGAGC
* * * * *
37792014 TTTTGTTCAACTCCTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
* **
37792035 TTCTGCTCAGCTCTTATAAGC
1 TTCTGTTCAGCTCTTACGAGC
* * *
37792056 TTCTGTTCAACTCTTAAGAGT
1 TTCTGTTCAGCTCTTACGAGC
37792077 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
37792098 TTCTGTTCAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTACGAGC
*
37792117 TCCTGTT
1 TTCTGTT
37792124 GATGATGTAC
Statistics
Matches: 153, Mismatches: 37, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
19 11 0.07
20 34 0.22
21 108 0.71
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Found at i:37792255 original size:24 final size:24
Alignment explanation
Indices: 37792223--37792283 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
37792213 GAATGGCATG
*
37792223 TATCATGATATGTATATATATCAA
1 TATCTTGATATGTATATATATCAA
37792247 TATCTTGATATGTATATATATCAA
1 TATCTTGATATGTATATATATCAA
37792271 TATCTTGATATGT
1 TATCTTGATATGT
37792284 TGATACATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (24 bp):
TATCTTGATATGTATATATATCAA
Found at i:37793674 original size:13 final size:13
Alignment explanation
Indices: 37793632--37793677 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
37793622 GATATATTAG
37793632 ATAATAATAGTAAA
1 ATAATAA-AGTAAA
37793646 ATAAT-AAGTAACA
1 ATAATAAAGTAA-A
*
37793659 ATAATAAAGTATA
1 ATAATAAAGTAAA
37793672 ATAATA
1 ATAATA
37793678 GTGATGAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 5 0.17
13 14 0.48
14 10 0.34
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (13 bp):
ATAATAAAGTAAA
Found at i:37793701 original size:19 final size:18
Alignment explanation
Indices: 37793666--37793714 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
37793656 ACAATAATAA
*
37793666 AGTATAATAA-TAGTGAT
1 AGTATAATAACAAGTGAT
37793683 GAGTATAATAACAAGTGAT
1 -AGTATAATAACAAGTGAT
*
37793702 AATAATAATAACA
1 AGT-ATAATAACA
37793715 GTAACAATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (18 bp):
AGTATAATAACAAGTGAT
Found at i:37793912 original size:3 final size:3
Alignment explanation
Indices: 37793906--37794022 Score: 110
Period size: 3 Copynumber: 38.3 Consensus size: 3
37793896 TTAAACAACA
37793906 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
37793954 AATT AA- AAA AAT GAT GAT AGT AAA AAA AAT AAA AAT AAT AGT AAT
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
37793999 GAT AAT ACATT AAG AAT AAT AAT A
1 AAT AAT A-A-T AAT AAT AAT AAT A
37794023 TGTTAATAAC
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
2 2 0.02
3 86 0.91
4 5 0.05
5 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:37799239 original size:19 final size:19
Alignment explanation
Indices: 37799215--37799253 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37799205 AATGAAAGTG
37799215 ATTGTCGAATGGCTATTGA
1 ATTGTCGAATGGCTATTGA
37799234 ATTGTCGAATGGCTATTGA
1 ATTGTCGAATGGCTATTGA
37799253 A
1 A
37799254 ATATTGAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (19 bp):
ATTGTCGAATGGCTATTGA
Found at i:37807823 original size:3 final size:3
Alignment explanation
Indices: 37807815--37807852 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
37807805 ACTAAAATAA
37807815 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
37807853 AAGAGTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:37809459 original size:17 final size:17
Alignment explanation
Indices: 37809423--37809473 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
37809413 CATAATTTTT
* *
37809423 TCACATACTTTAACCATA
1 TCACATACTGTCA-CATA
37809441 TCACATACTGTCACATA
1 TCACATACTGTCACATA
*
37809458 TCGACAGA-TGTCACAT
1 TC-ACATACTGTCACAT
37809474 TTCGAGTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.29
Consensus pattern (17 bp):
TCACATACTGTCACATA
Found at i:37809675 original size:17 final size:19
Alignment explanation
Indices: 37809640--37809680 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
37809630 TACCCAATTT
37809640 ACCTGTGTAATCGCACACG
1 ACCTGTGTAATCGCACACG
*
37809659 -CCTGTGTACTC-CACACG
1 ACCTGTGTAATCGCACACG
37809676 ACCTG
1 ACCTG
37809681 GCACACGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (19 bp):
ACCTGTGTAATCGCACACG
Found at i:37812533 original size:41 final size:41
Alignment explanation
Indices: 37812431--37812557 Score: 155
Period size: 41 Copynumber: 3.0 Consensus size: 41
37812421 GTTATCATAG
* *
37812431 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA---A
* * *
37812475 CAAATCTTATCTCCCTGAAATTGCGGTGAAGCAGATTGAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA
* * *
37812516 CAAATCTTATCTTCCTGAAGTTACAATGGAGCAGATTGAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA
37812557 C
1 C
37812558 GACAAATCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 37 0.51
44 35 0.49
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (41 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA
Found at i:37812636 original size:179 final size:180
Alignment explanation
Indices: 37812339--37812734 Score: 476
Period size: 179 Copynumber: 2.2 Consensus size: 180
37812329 TACCATAGCG
**
37812339 AATCTTAT-TTCCATGAAGTTGCAATGGAGCAGATTGAAATTACAAATCCTATACCCTTGAAGTT
1 AATCTTATCTTCC-TGAAGTTGCAATGGAGCAGATTGAAACGACAAATCCTATACCCTTGAAGTT
* ** * * * *
37812403 ATAGTGGGTCGGACTAAAGTTATCATAGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT
65 ATAGTAGGTCGGACTAAACCTACCATAGCAAATCTCATCTCCCTAAAGTTGTAGTGGAGCAAACT
*
37812468 GAAGCTACAAATCTTATCTCCCTGAAATTGCGGT-GAAGCAGATTGAAAC-A
130 GAAGCTACAAATCTTATCTCCCTGAAATTGCAGTAG-AGCAGATTGAAACAA
*
37812518 AATCTTATCTTCCTGAAGTTACAATGGAGCAGATTGAAACGACAAATCCTATA-CCTCTGAAGTT
1 AATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAACGACAAATCCTATACCCT-TGAAGTT
* * * * * ** * * *
37812582 GTAGTAGGTCGGATTAAACCTACCATAGCGAGTCTCATTTCTTTAAATTTGTAGTGGAGTAAATT
65 ATAGTAGGTCGGACTAAACCTACCATAGCAAATCTCATCTCCCTAAAGTTGTAGTGGAGCAAACT
* *
37812647 GAAGCTACAAATCTTATCTCCCTGAAATTGTAGTAGCGCAGATTGAAACTAAA
130 GAAGCTACAAATCTTATCTCCCTGAAATTGCAGTAGAGCAGATTGAAAC--AA
** * *
37812700 AATCTTATCCCCCTGAAGTTGTAGTGGAGCAGATT
1 AATCTTATCTTCCTGAAGTTGCAATGGAGCAGATT
37812735 AAAGCTATGA
Statistics
Matches: 183, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
178 3 0.02
179 144 0.79
180 5 0.03
182 31 0.17
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (180 bp):
AATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAACGACAAATCCTATACCCTTGAAGTTA
TAGTAGGTCGGACTAAACCTACCATAGCAAATCTCATCTCCCTAAAGTTGTAGTGGAGCAAACTG
AAGCTACAAATCTTATCTCCCTGAAATTGCAGTAGAGCAGATTGAAACAA
Found at i:37812692 original size:44 final size:44
Alignment explanation
Indices: 37812431--37812781 Score: 253
Period size: 44 Copynumber: 7.9 Consensus size: 44
37812421 GTTATCATAG
*
37812431 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
* ** *
37812475 CAAATCTTATCTCCCTGAAATTGCGGTGAAGCAGATTGAA---A
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
* ** * * *
37812516 CAAATCTTATCTTCCTGAAGTTACAATGGAGCAGATTGAAACGA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
* * * * * *
37812560 CAAATCCTATAC-CTCTGAAGTTGTAGTAGG-TCGGATTAAACCTA
1 CAAATCTTAT-CTCCCTGAAGTTGTAGT-GGAGCAGATTGAAGCTA
* * ** * * * *
37812604 CCATAGCGAGTCTCATTTCTTTAAATTTGTAGTGGAGTAAATTGAAGCTA
1 -CA-A---A-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
* * * *
37812654 CAAATCTTATCTCCCTGAAATTGTAGTAGCGCAGATTGAAACTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
* * *
37812698 AAAATCTTATCCCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
** * ** *
37812742 TGAATCTCATCTCCCTGAAGTTGCGGTGGAGTAGATTGAA
1 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAA
37812782 ATTACCTTTG
Statistics
Matches: 234, Mismatches: 60, Indels: 26
0.73 0.19 0.08
Matches are distributed among these distances:
41 35 0.15
44 162 0.69
45 6 0.03
46 1 0.00
48 1 0.00
49 5 0.02
50 24 0.10
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTA
Found at i:37813286 original size:12 final size:12
Alignment explanation
Indices: 37813269--37813298 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37813259 AACGAAATGA
*
37813269 CAGAAACAATAG
1 CAGAAACAACAG
37813281 CAGAAACAACAG
1 CAGAAACAACAG
37813293 CAGAAA
1 CAGAAA
37813299 TAGCAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.20, G:0.17, T:0.03
Consensus pattern (12 bp):
CAGAAACAACAG
Found at i:37816399 original size:27 final size:28
Alignment explanation
Indices: 37816332--37816400 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 28
37816322 TTTTTCTCAT
37816332 ATATTATATATTTTAAATTGTTTTATTAC
1 ATATTAT-TATTTTAAATTGTTTTATTAC
*
37816361 -TA-T-TTATTTTAAGTT-TTTT-TTAC
1 ATATTATTATTTTAAATTGTTTTATTAC
37816384 ATATTATGTATTTTAAA
1 ATATTAT-TATTTTAAA
37816401 CTATTATCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
23 4 0.12
24 6 0.18
25 11 0.32
26 2 0.06
27 9 0.26
28 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (28 bp):
ATATTATTATTTTAAATTGTTTTATTAC
Found at i:37816429 original size:24 final size:24
Alignment explanation
Indices: 37816402--37816455 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
37816392 TATTTTAAAC
* * *
37816402 TATTATCCGTTTTAAATTTTTATA
1 TATTATCCATTTTAAAATATTATA
**
37816426 TATTATTTATTTTAAAATATTATA
1 TATTATCCATTTTAAAATATTATA
37816450 TATTAT
1 TATTAT
37816456 TTATTTTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTATCCATTTTAAAATATTATA
Found at i:37816470 original size:24 final size:24
Alignment explanation
Indices: 37816411--37816470 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
37816401 CTATTATCCG
*
37816411 TTTTAAATTTTTATATATTATTTA
1 TTTTAAATTATTATATATTATTTA
*
37816435 TTTTAAAATATTATATATTATTTA
1 TTTTAAATTATTATATATTATTTA
*
37816459 TTTTGAATTATT
1 TTTTAAATTATT
37816471 TTTTATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTTAAATTATTATATATTATTTA
Found at i:37816477 original size:26 final size:26
Alignment explanation
Indices: 37816417--37816905 Score: 204
Period size: 26 Copynumber: 18.8 Consensus size: 26
37816407 TCCGTTTTAA
37816417 ATTTTTATATATTATTTATTTTAAA--
1 ATTTTT-TATATTATTTATTTTAAATT
* * *
37816442 ATATTATATATTATTTATTTTGAATT
1 ATTTTTTATATTATTTATTTTAAATT
**
37816468 ATTTTTTATATATATCTTTTATTTTTAAACC
1 ATTTTTTATAT-TA---TTTA-TTTTAAATT
* *
37816499 GTTTTGTATATTATTTATTTTAAATT
1 ATTTTTTATATTATTTATTTTAAATT
**
37816525 -TCTTTTTACATATTATTTACCTTAAA--
1 AT-TTTTT--ATATTATTTATTTTAAATT
* * * *
37816551 GTCTTTTATA-T-GTTATTTTAAAGT
1 ATTTTTTATATTATTTATTTTAAATT
* *
37816575 GTCTTTTATATTATTTATTTTAAATT
1 ATTTTTTATATTATTTATTTTAAATT
** *
37816601 GCTTTGTATATTATTTATTTTAAA-T
1 ATTTTTTATATTATTTATTTTAAATT
*
37816626 ATTTTTTATACATTATTTATTTAAAATT
1 ATTTTTTAT--ATTATTTATTTTAAATT
* * * *
37816654 ATTTTATATATCATCTATCTTAAATT
1 ATTTTTTATATTATTTATTTTAAATT
*** * * * * *
37816680 -TTCACATATAATATTCAATGTAAACT
1 ATT-TTTTATATTATTTATTTTAAATT
* * *
37816706 ATTTTATATGTTATTCATTTT-AA--
1 ATTTTTTATATTATTTATTTTAAATT
*
37816729 ATTTTTTATATTATTTATTTTAAGTT
1 ATTTTTTATATTATTTATTTTAAATT
** * *
37816755 GCTTTAT-TATTATTTATTTTAAGTT
1 ATTTTTTATATTATTTATTTTAAATT
* * *
37816780 -TTTTTATACATTATTTATTTGAAACT
1 ATTTTT-TATATTATTTATTTTAAATT
* *
37816806 ATTTTTTTATATACTATTTACTTTAAGTT
1 A-TTTTTTATAT--TATTTATTTTAAATT
* * *
37816835 GTTTCATT-CATTATTTATTTT-AA--
1 ATTT-TTTATATTATTTATTTTAAATT
** ***
37816858 ACCTTTTATATTATTTACCCTAAATT
1 ATTTTTTATATTATTTATTTTAAATT
*
37816884 GTTTTTGTATATTATTTTATTT
1 ATTTTT-TATATTA-TTTATTT
37816906 CATTTGTCTT
Statistics
Matches: 342, Mismatches: 86, Indels: 69
0.69 0.17 0.14
Matches are distributed among these distances:
22 10 0.03
23 29 0.08
24 36 0.11
25 37 0.11
26 124 0.36
27 34 0.10
28 38 0.11
29 13 0.04
30 6 0.02
31 15 0.04
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (26 bp):
ATTTTTTATATTATTTATTTTAAATT
Found at i:37816489 original size:54 final size:54
Alignment explanation
Indices: 37816418--37816647 Score: 148
Period size: 57 Copynumber: 4.4 Consensus size: 54
37816408 CCGTTTTAAA
*
37816418 TTTTTATATATTATTTA-TTTTAAA-ATATTATATATTATTTATTTTGAATTAT-
1 TTTTTATATATTATTTATTTTTAAACATATTATATATTATTTATTTTAAATT-TC
* * * *
37816470 TTTTTATATATATCTTTTATTTTTAAACCGTTTTGTATATTATTTATTTTAAATTTC
1 TTTTTATATAT-T-ATTTATTTTTAAA-CATATTATATATTATTTATTTTAAATTTC
* ** * * *
37816527 TTTTTACATATTATTTA-CCTTAAA-GTCTT-T-TA-TATGTTATTTTAAAGTGTC
1 TTTTTATATATTATTTATTTTTAAACATATTATATATTAT-TTATTTTAAA-TTTC
* *
37816578 --TTT-TATATTATTTA-TTTTAAATTGC-T-TTGTATATTATTTATTTTAAATAT-
1 TTTTTATATATTATTTATTTTTAAA---CATATTATATATTATTTATTTTAAATTTC
*
37816628 TTTTTATACATTATTTATTT
1 TTTTTATATATTATTTATTT
37816648 AAAATTATTT
Statistics
Matches: 143, Mismatches: 16, Indels: 36
0.73 0.08 0.18
Matches are distributed among these distances:
48 15 0.10
49 6 0.04
50 14 0.10
51 8 0.06
52 30 0.21
53 14 0.10
54 11 0.08
55 11 0.08
56 2 0.01
57 32 0.22
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (54 bp):
TTTTTATATATTATTTATTTTTAAACATATTATATATTATTTATTTTAAATTTC
Found at i:37816598 original size:48 final size:48
Alignment explanation
Indices: 37816411--37816663 Score: 136
Period size: 50 Copynumber: 4.9 Consensus size: 48
37816401 CTATTATCCG
* * * *
37816411 TTTTAAAT-T-TTTATATATTATTTATTTTAAAATATTATATATTATTTA
1 TTTTAAATATCTTT-TATATTATTTATTTTAAATTCTTTTATA-TAGTTA
* * * *
37816459 TTTTGAATTATTTTTTATATATATCTTTTATTTTTAAACCGTT-TTGTATATTATTTA
1 TTTT-AAATATCTTTTATAT-TA---TTTA-TTTTAAA---TTCTTTTATA-TAGTTA
* ** *
37816516 TTTTAAATTTCTTTTTACATATTATTTACCTTAAAGTCTTTTATAT-GTTA
1 TTTTAAATATC-TTTT--ATATTATTTATTTTAAATTCTTTTATATAGTTA
* *
37816566 TTTTAAAGTGTCTTTTATATTATTTATTTTAAATTGCTTTGTATATTATTTA
1 TTTTAAA-TATCTTTTATATTATTTATTTTAAATT-CTTT-TATA-TAGTTA
* * *
37816618 TTTTAAATATTTTTTATACATTATTTATTTAAAATTATTTTATATA
1 TTTTAAATATCTTTTAT--ATTATTTATTTTAAATTCTTTTATATA
37816664 TCATCTATCT
Statistics
Matches: 163, Mismatches: 20, Indels: 42
0.72 0.09 0.19
Matches are distributed among these distances:
48 20 0.12
49 7 0.04
50 26 0.16
51 23 0.14
52 19 0.12
53 16 0.10
54 9 0.06
55 11 0.07
56 4 0.02
57 21 0.13
58 3 0.02
59 4 0.02
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (48 bp):
TTTTAAATATCTTTTATATTATTTATTTTAAATTCTTTTATATAGTTA
Found at i:37816654 original size:14 final size:14
Alignment explanation
Indices: 37816610--37816657 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
37816600 TGCTTTGTAT
*
37816610 ATTATTTATTTTAA
1 ATTATTTATTTAAA
*
37816624 A-TATTT-TTTATAC
1 ATTATTTATTTA-AA
37816637 ATTATTTATTTAAA
1 ATTATTTATTTAAA
37816651 ATTATTT
1 ATTATTT
37816658 TATATATCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.11
13 7 0.25
14 14 0.50
15 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATTTATTTAAA
Found at i:37816732 original size:23 final size:23
Alignment explanation
Indices: 37816706--37816751 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37816696 AATGTAAACT
*
37816706 ATTTTATATGTTATTCATTTTAA
1 ATTTTATATATTATTCATTTTAA
* *
37816729 ATTTTTTATATTATTTATTTTAA
1 ATTTTATATATTATTCATTTTAA
37816752 GTTGCTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTTTATATATTATTCATTTTAA
Found at i:37816865 original size:51 final size:51
Alignment explanation
Indices: 37816757--37816875 Score: 118
Period size: 55 Copynumber: 2.3 Consensus size: 51
37816747 TTTAAGTTGC
* * * *
37816757 TTTAT-TATTATTTATTTTAAGTTTTTTTATACATTATTTATTTGAAACTATTTT
1 TTTATATA-TATTTACTTTAAGTTGTTTCATACATTATTTATTTGAAAC---TCT
* *
37816811 TTTATATACTATTTACTTTAAGTTGTTTCATTCATTATTTATTTTAAAC-CT
1 TTTATATA-TATTTACTTTAAGTTGTTTCATACATTATTTATTTGAAACTCT
37816862 TTTATAT-TATTTAC
1 TTTATATATATTTAC
37816876 CCTAAATTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
49 7 0.12
51 8 0.14
54 5 0.09
55 37 0.65
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (51 bp):
TTTATATATATTTACTTTAAGTTGTTTCATACATTATTTATTTGAAACTCT
Found at i:37816865 original size:80 final size:76
Alignment explanation
Indices: 37816730--37816874 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 76
37816720 TCATTTTAAA
* ***
37816730 TTTTTTATATTATTTATTTTAAGTTGCTTTATTATTATTTATTTTAAGTTTTTTTATACATTATT
1 TTTTTTATATTATTTACTTTAAGTTGCTTTATTATTATTTATTTTAAGACCTTTTAT--ATTATT
37816795 TATTTGAAACTAT
64 TATTTGAAACTAT
37816808 TTTTTTATATACTATTTACTTTAAGTTG-TTTCATTCATTATTTATTTTAA-ACCTTTTATATTA
1 TTTTTTATAT--TATTTACTTTAAGTTGCTTT-ATT-ATTATTTATTTTAAGACCTTTTATATTA
37816871 TTTA
62 TTTA
37816875 CCCTAAATTG
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
78 18 0.31
79 3 0.05
80 24 0.41
81 14 0.24
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (76 bp):
TTTTTTATATTATTTACTTTAAGTTGCTTTATTATTATTTATTTTAAGACCTTTTATATTATTTA
TTTGAAACTAT
Found at i:37825776 original size:36 final size:36
Alignment explanation
Indices: 37825729--37825801 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
37825719 CAATCTCGGA
*
37825729 TGAAGTGATCTAGCGAACCTGATAAACATATTAATT
1 TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
37825765 TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
1 TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
37825801 T
1 T
37825802 ACATGATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (36 bp):
TGAAGTAATCTAGCGAACCTGATAAACATATTAATT
Found at i:37826054 original size:30 final size:30
Alignment explanation
Indices: 37826020--37826076 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37826010 AATAAGAAGA
*
37826020 TATTATTT-TGTTTTATTTCATTTTATTATT
1 TATTATTTAT-TTTTATTTCATTCTATTATT
*
37826050 TATTATTTATTTTTATTTTATTCTATT
1 TATTATTTATTTTTATTTCATTCTATT
37826077 TTATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (30 bp):
TATTATTTATTTTTATTTCATTCTATTATT
Found at i:37826070 original size:5 final size:5
Alignment explanation
Indices: 37826022--37826086 Score: 62
Period size: 5 Copynumber: 13.0 Consensus size: 5
37826012 TAAGAAGATA
* * *
37826022 TTATT TTGTT TTATT TCATT TTATT ATT-TA TTA-T TTATTT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT -TTATT TTATT TTA-TT TTATT TTATT
*
37826072 CTATT TTATT TTATT
1 TTATT TTATT TTATT
37826087 AATTTAGGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
4 5 0.10
5 37 0.77
6 6 0.12
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:37830548 original size:4 final size:4
Alignment explanation
Indices: 37830539--37830565 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
37830529 TTTACACAAA
37830539 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
37830566 AGATTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:37831174 original size:5 final size:5
Alignment explanation
Indices: 37831158--37831216 Score: 64
Period size: 5 Copynumber: 11.0 Consensus size: 5
37831148 TAGGAAGATA
* *
37831158 TTATT TTGTT TTATT TTATT TTATTAT TTATTT TTATTT TTAAT TTATT
1 TTATT TTATT TTATT TTATT TTA-T-T TTA-TT TTA-TT TTATT TTATT
37831207 TTATT TTATT
1 TTATT TTATT
37831217 AATTTAGGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
5 31 0.65
6 11 0.23
7 6 0.12
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:37831185 original size:23 final size:24
Alignment explanation
Indices: 37831156--37831213 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
37831146 AATAGGAAGA
*
37831156 TATTATTT-TGTTTTA-TTTTATTT
1 TATTATTTAT-TTTTATTTTTAATT
37831179 TATTATTTATTTTTATTTTTAATT
1 TATTATTTATTTTTATTTTTAATT
37831203 TA-T-TTTATTTT
1 TATTATTTATTTT
37831214 ATTAATTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 8 0.25
23 14 0.44
24 10 0.31
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.78
Consensus pattern (24 bp):
TATTATTTATTTTTATTTTTAATT
Found at i:37836747 original size:3 final size:3
Alignment explanation
Indices: 37836739--37836793 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
37836729 TCATCTTTAC
37836739 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
37836787 ATT ATT A
1 ATT ATT A
37836794 GCAATGTTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:37838720 original size:19 final size:19
Alignment explanation
Indices: 37838681--37838720 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
37838671 GCTGTCCAAT
*
37838681 TTTAAAATAATAATCACAA
1 TTTAAAATAAAAATCACAA
37838700 TTTAAAATAAAATATCA-AA
1 TTTAAAATAAAA-ATCACAA
37838719 TT
1 TT
37838721 CGAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
TTTAAAATAAAAATCACAA
Found at i:37844811 original size:20 final size:18
Alignment explanation
Indices: 37844786--37844823 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
37844776 AAGTAAATTA
37844786 TATTATTTTAATAATATTTT
1 TATTA-TTTAAT-ATATTTT
37844806 TATTATTTAATATATTTT
1 TATTATTTAATATATTTT
37844824 ATACGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 6 0.33
20 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTATTTAATATATTTT
Found at i:37845416 original size:24 final size:24
Alignment explanation
Indices: 37845384--37845438 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
37845374 AGATAACCCC
37845384 AAACCCCACACCAAATCATTTTCT
1 AAACCCCACACCAAATCATTTTCT
37845408 AAACCCCACACCAAATCATTTTCT
1 AAACCCCACACCAAATCATTTTCT
37845432 AAACCCC
1 AAACCCC
37845439 TCACTCTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (24 bp):
AAACCCCACACCAAATCATTTTCT
Found at i:37848199 original size:22 final size:23
Alignment explanation
Indices: 37848167--37848209 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
37848157 GAGTATCTAC
*
37848167 AAATCAAATC-TCTAATATTATA
1 AAATCAAATCTTCTAAGATTATA
*
37848189 AAATCATATCTTCTAAGATTA
1 AAATCAAATCTTCTAAGATTA
37848210 CATATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTATA
Found at i:37848244 original size:17 final size:17
Alignment explanation
Indices: 37848193--37848245 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
37848183 ATTATAAAAT
37848193 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
37848210 CATATTATATCTAAGATTG
1 CATA-TCT-TCTAAGATTA
*
37848229 CATATCTTCGAAGATTA
1 CATATCTTCTAAGATTA
37848246 TGTTTCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 12 0.41
18 4 0.14
19 13 0.45
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:37851279 original size:22 final size:22
Alignment explanation
Indices: 37851251--37851295 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
37851241 CAAGGTAGCT
37851251 AGATAGAAGACTTCATTTCTAC
1 AGATAGAAGACTTCATTTCTAC
37851273 AGATAGAAGACTTCATTTCTAC
1 AGATAGAAGACTTCATTTCTAC
37851295 A
1 A
37851296 TACTCCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (22 bp):
AGATAGAAGACTTCATTTCTAC
Found at i:37853239 original size:22 final size:23
Alignment explanation
Indices: 37853212--37853256 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
37853202 GGGTATCTAC
37853212 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
37853234 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
37853257 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:37853260 original size:17 final size:17
Alignment explanation
Indices: 37853238--37853290 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 17
37853228 ATTACAAAAT
37853238 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
37853255 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
37853274 CATATCTTCAAAGATTA
1 CATATCTTCTAAGATTA
37853291 TATTTCCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 14 0.45
18 2 0.06
19 15 0.48
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:37853261 original size:22 final size:22
Alignment explanation
Indices: 37853209--37853266 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
37853199 AAAGGGTATC
*
37853209 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
37853230 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
37853253 TACATATCATATCT
1 TACAAATCATATCT
37853267 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:37853269 original size:19 final size:20
Alignment explanation
Indices: 37853222--37853279 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
37853212 AAATCAAATC
*
37853222 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
37853245 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
37853264 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
37853280 TTCAAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:37862644 original size:10 final size:9
Alignment explanation
Indices: 37862629--37862677 Score: 53
Period size: 10 Copynumber: 5.0 Consensus size: 9
37862619 TAATTTTAAG
37862629 ATTTATTTT
1 ATTTATTTT
37862638 CATTTATCTTT
1 -ATTTAT-TTT
*
37862649 AATTATCTTT
1 ATTTAT-TTT
37862659 ATTTATTTGT
1 ATTTATTT-T
37862669 ATTTATTTT
1 ATTTATTTT
37862678 TTAGAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 3 0.09
10 29 0.83
11 3 0.09
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.69
Consensus pattern (9 bp):
ATTTATTTT
Found at i:37863613 original size:10 final size:10
Alignment explanation
Indices: 37863591--37863626 Score: 58
Period size: 9 Copynumber: 3.8 Consensus size: 10
37863581 CCCTTATACT
37863591 ATTATTTTT-
1 ATTATTTTTA
37863600 ATTATTTTTA
1 ATTATTTTTA
37863610 ATTATTTTTA
1 ATTATTTTTA
37863620 A-TATTTT
1 ATTATTTT
37863627 ATAGGGATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 15 0.58
10 11 0.42
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTATTTTTA
Found at i:37866584 original size:3 final size:3
Alignment explanation
Indices: 37866576--37866864 Score: 270
Period size: 3 Copynumber: 97.7 Consensus size: 3
37866566 TTAATTAATT
* * *
37866576 TTA TTA TTA TT- TT- TTA CTA TTA TTA TTTA TCA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * *
37866620 TTA CTA TTA TTA TTA TT- TTA CTA TCA TT- TATA TTC TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * *
37866662 TTA TTA TTA TTA TTA TTA CTA TTA CTA TTA TTT TTA TTT TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
37866710 TTA CTA TTA CCA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
**
37866759 TTA TTA TTA TTA TTA TTA TTA CGA TT- TCTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * * * *
37866804 TTG TTA TTA TTA TCA TTA -TA ATA TTA TTA TTA TTA CTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
37866851 TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TT
37866865 TTTAAAACCA
Statistics
Matches: 232, Mismatches: 44, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
2 14 0.06
3 210 0.91
4 8 0.03
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:37867005 original size:11 final size:12
Alignment explanation
Indices: 37866954--37867006 Score: 65
Period size: 11 Copynumber: 4.5 Consensus size: 12
37866944 ATTTTCTTTG
37866954 TTATTTCATTTA
1 TTATTTCATTTA
*
37866966 TTA-TTCCTTTA
1 TTATTTCATTTA
*
37866977 TTATTTTATTTA
1 TTATTTCATTTA
37866989 TTTATTTCATTT-
1 -TTATTTCATTTA
37867001 TTATTT
1 TTATTT
37867007 TGTTTTTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 16 0.46
12 9 0.26
13 10 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTCATTTA
Found at i:37867028 original size:3 final size:3
Alignment explanation
Indices: 37867020--37867062 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
37867010 TTTTGTTCTC
37867020 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
37867063 TGTTTATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:37870144 original size:41 final size:41
Alignment explanation
Indices: 37870099--37870181 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
37870089 GAGAGAGAGA
37870099 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
1 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
37870140 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
1 TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
37870181 T
1 T
37870182 TAAATTGACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (41 bp):
TCGTTCAAAACCAAAAAGGAGAGTTGAGAGGTGCGCAGCTC
Found at i:37871496 original size:14 final size:13
Alignment explanation
Indices: 37871468--37871513 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
37871458 ATTACTAAAC
37871468 TTTT-AAAAAGTAT
1 TTTTCAAAAA-TAT
37871481 TTTTCAAAAATAAT
1 TTTTCAAAAAT-AT
*
37871495 TTTTC-ACAATAT
1 TTTTCAAAAATAT
37871507 TTTTCAA
1 TTTTCAA
37871514 CCTCAATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 7 0.24
13 10 0.34
14 12 0.41
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (13 bp):
TTTTCAAAAATAT
Found at i:37884621 original size:32 final size:33
Alignment explanation
Indices: 37884576--37884639 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
37884566 TTATCATAGC
*
37884576 CTCAATGGCATCAT-CCTACCAGTCAGCTTTTT
1 CTCAATGGCATCATCCCTACCAGCCAGCTTTTT
* *
37884608 CTCAATGGTATCATCCCTAGCAGCCAGCTTTT
1 CTCAATGGCATCATCCCTACCAGCCAGCTTTT
37884640 CAACAGAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (33 bp):
CTCAATGGCATCATCCCTACCAGCCAGCTTTTT
Found at i:37887827 original size:19 final size:17
Alignment explanation
Indices: 37887785--37887827 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
37887775 TGTATCATGC
37887785 AAAAAT-TGAAAATAAA
1 AAAAATATGAAAATAAA
37887801 ATAAAATATGAAAATTTAAA
1 A-AAAATATGAAAA--TAAA
37887821 AAAAATA
1 AAAAATA
37887828 ACTAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.04
17 5 0.22
18 6 0.26
19 6 0.26
20 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAAATATGAAAATAAA
Found at i:37888117 original size:99 final size:99
Alignment explanation
Indices: 37887988--37888183 Score: 288
Period size: 99 Copynumber: 2.0 Consensus size: 99
37887978 TTTTTGAAGC
* ** *
37887988 ATCAATGACTCGTTCTGTTAAGGTGTGGTGGTAACTATGACACAAAATCAAATTTAAAA-AA-TT
1 ATCAACGACTCGTTCTGTTAAGGTGTGGTGGTAACTACAACAAAAAATCAAA-TTAAAAGAATTT
37888051 AAAAATAATAAAAGCAACTAAAAACAATAAAAAAAA
65 AAAAA-AATAAAAGCAACTAAAAACAATAAAAAAAA
* * *
37888087 ATCAACGACTCTTTCTGTTAAGGTGTGGTGGTACCTACAACAAAAAATCAAATTAAAAGAATTTT
1 ATCAACGACTCGTTCTGTTAAGGTGTGGTGGTAACTACAACAAAAAATCAAATTAAAAGAATTTA
*
37888152 AAAAAATAAAAGCAACTAAACACAATAAAAAA
66 AAAAAATAAAAGCAACTAAAAACAATAAAAAA
37888184 TATAATTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 6 0.07
99 75 0.86
100 6 0.07
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.24
Consensus pattern (99 bp):
ATCAACGACTCGTTCTGTTAAGGTGTGGTGGTAACTACAACAAAAAATCAAATTAAAAGAATTTA
AAAAAATAAAAGCAACTAAAAACAATAAAAAAAA
Found at i:37895419 original size:3 final size:3
Alignment explanation
Indices: 37895411--37895442 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
37895401 AAGGTAAAAT
37895411 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37895443 TAAATTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:37895434 original size:11 final size:11
Alignment explanation
Indices: 37895408--37895445 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
37895398 AAAAAGGTAA
37895408 AATATAATAAT
1 AATATAATAAT
37895419 -A-ATAATAAT
1 AATATAATAAT
37895428 AATATAATAAT
1 AATATAATAAT
37895439 AATATAA
1 AATATAA
37895446 ATTGATTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.32
10 2 0.08
11 15 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AATATAATAAT
Found at i:37895507 original size:20 final size:20
Alignment explanation
Indices: 37895471--37895508 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37895461 AATAGGACAA
*
37895471 TAATAATAGTAATAATAAAG
1 TAATAATAGTAAAAATAAAG
37895491 TAATAA-AGTAGAAAATAA
1 TAATAATAGTA-AAAATAA
37895509 TAATGGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (20 bp):
TAATAATAGTAAAAATAAAG
Found at i:37895548 original size:29 final size:30
Alignment explanation
Indices: 37895506--37895583 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
37895496 AAGTAGAAAA
*
37895506 TAATAATGGAATATTAATAAG-CATGATAAT-T
1 TAATAAT-G-ATATTAATAAGAAATGAT-ATGT
*
37895537 TATTAATGATATTAAT-AGAAATGATATGT
1 TAATAATGATATTAATAAGAAATGATATGT
*
37895566 TAATAATGATAATAATAA
1 TAATAATGATATTAATAA
37895584 AATAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 4 0.10
29 28 0.70
30 2 0.05
31 6 0.15
ACGTcount: A:0.50, C:0.01, G:0.12, T:0.37
Consensus pattern (30 bp):
TAATAATGATATTAATAAGAAATGATATGT
Found at i:37895725 original size:15 final size:16
Alignment explanation
Indices: 37895566--37895726 Score: 66
Period size: 16 Copynumber: 10.0 Consensus size: 16
37895556 AATGATATGT
*
37895566 TAATAAT-GATAATAA
1 TAATAATAGAAAATAA
* *
37895581 TAA-AATAAAAAAATAG
1 TAATAAT-AGAAAATAA
* * *
37895597 TAATAATAGTATATTTA
1 TAATAATAG-AAAATAA
* * *
37895614 TAATGATAGGAAACAA
1 TAATAATAGAAAATAA
* *
37895630 TAATGATA-AAAGAAAA
1 TAATAATAGAAA-ATAA
*
37895646 TAATAATA-ACAATAA
1 TAATAATAGAAAATAA
37895661 TGGAAGTAAT-GAAAATAA
1 T--AA-TAATAGAAAATAA
*
37895679 TAATAATAG-AAACAA
1 TAATAATAGAAAATAA
* *
37895694 TAGTAATA-AAAGTAA
1 TAATAATAGAAAATAA
37895709 TAATAAAATAGAAAATAA
1 TAAT--AATAGAAAATAA
37895727 CAATGATACA
Statistics
Matches: 106, Mismatches: 26, Indels: 25
0.68 0.17 0.16
Matches are distributed among these distances:
14 3 0.03
15 32 0.30
16 34 0.32
17 20 0.19
18 17 0.16
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (16 bp):
TAATAATAGAAAATAA
Found at i:37895770 original size:3 final size:3
Alignment explanation
Indices: 37895566--37895751 Score: 50
Period size: 3 Copynumber: 61.7 Consensus size: 3
37895556 AATGATATGT
* * * * *
37895566 TAA TAA TGA TAA TAA TAA -AA TAA -AA AAA TAG TAA TAA TAG T-A TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
37895611 TTA TAA TGA TAGGA -AA CAA TAA TGA TAA -AA GAA -AA TAA TAA TAA
1 TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
37895655 CAA TAA TGGAA GTAA TGAA -AA TAA TAA TAA TAGA -AA CAA TAG TAA
1 TAA TAA T--AA -TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * *
37895700 TAA -AA GTAA TAA TAA -AA TAGA AAA TAA CAA TGA TACA TTAA CAA TAA
1 TAA TAA -TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A -TAA TAA TAA
37895747 TAA TA
1 TAA TA
37895752 TACGTGCTAA
Statistics
Matches: 133, Mismatches: 29, Indels: 42
0.65 0.14 0.21
Matches are distributed among these distances:
2 17 0.13
3 98 0.74
4 12 0.09
5 5 0.04
6 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:37896259 original size:24 final size:25
Alignment explanation
Indices: 37896232--37896283 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
37896222 ATCTCGCGTA
*
37896232 TTTCTTGTACT-GAAAGTCTCTCTT
1 TTTCTTGTACTCGAAACTCTCTCTT
* *
37896256 TTTCTTGTATTCGAATCTCTCTCTT
1 TTTCTTGTACTCGAAACTCTCTCTT
37896281 TTT
1 TTT
37896284 TTCTCCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.13, C:0.21, G:0.10, T:0.56
Consensus pattern (25 bp):
TTTCTTGTACTCGAAACTCTCTCTT
Found at i:37896416 original size:24 final size:24
Alignment explanation
Indices: 37896384--37896432 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
37896374 CTTTTTGCAA
37896384 GCAAGTGGGGTGATGGAGTTAGTG
1 GCAAGTGGGGTGATGGAGTTAGTG
*
37896408 GCAAGTGGGTTGATGGAGTTAGTG
1 GCAAGTGGGGTGATGGAGTTAGTG
37896432 G
1 G
37896433 TTGGTTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (24 bp):
GCAAGTGGGGTGATGGAGTTAGTG
Found at i:37896443 original size:12 final size:12
Alignment explanation
Indices: 37896426--37896456 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
37896416 GTTGATGGAG
37896426 TTAGTGGTTGGT
1 TTAGTGGTTGGT
37896438 TTAGTGGTTGGT
1 TTAGTGGTTGGT
37896450 TTAGTGG
1 TTAGTGG
37896457 GGTTCTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (12 bp):
TTAGTGGTTGGT
Found at i:37896926 original size:44 final size:44
Alignment explanation
Indices: 37896878--37897105 Score: 140
Period size: 44 Copynumber: 5.2 Consensus size: 44
37896868 ATTTTCAGTA
*
37896878 TGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTAACTTAAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAACTTAAATC
* ** * * * **
37896922 TGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGT--CTTCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACT-G--GTAACTTAAATC
* * ** * * * *
37896967 TGCTCTACTACTGCTT-AGGGAGATAAGACAT-GCAATTTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGAC-TGGTAA-CTTAAATC
* * * * * * *
37897011 TGATCCACTGTAACTTTAGGGAGATAAGACTTGTATCTTGAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAACTTAAATC
* **
37897055 TGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAACTTAAATC
37897099 TGCTCCA
1 TGCTCCA
37897106 TTACAGTTAC
Statistics
Matches: 134, Mismatches: 41, Indels: 18
0.69 0.21 0.09
Matches are distributed among these distances:
41 1 0.01
44 97 0.72
45 34 0.25
47 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAACTTAAATC
Found at i:37896984 original size:133 final size:133
Alignment explanation
Indices: 37896745--37897082 Score: 426
Period size: 133 Copynumber: 2.5 Consensus size: 133
37896735 TGCTTGAACC
* * * ** * *
37896745 TGCTCCATTACAATTTCAGGGAGATAAGACTGGTGGCTTAAATATGCTCCATTGTCACTACATGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAACTTAAATCTGCTCCATTGCCACTACATGG
37896810 AGATAAGATTCGCCATCTTCGATCTGATCCACTACTACTTAGGGAGATAAGATC-TACAATTTTC
66 AGATAAGATTCGCCATCTTCGATCTGATCCACTACTACTTAGGGAGATAAGA-CATACAATTTTC
37896874 AGTA
130 AGTA
* *
37896878 TGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTAACTTAAATCTGCTCCATTGCCGCTACATGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAACTTAAATCTGCTCCATTGCCACTACATGG
* * * * *
37896943 AGATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGACATGCAATTTTCA
66 AGATAAGATTCGCCATCTTCGATCTGATCCACTACTACTTAGGGAGATAAGACATACAATTTTCA
*
37897008 GTC
131 GTA
* * * * * * * * * * *
37897011 TGATCCACTGTAACTTTAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTCAGGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAACTTAAATCTGCTCCATTGCCACTACATGG
37897076 AGATAAG
66 AGATAAG
37897083 GCTGGTGGCT
Statistics
Matches: 176, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
132 1 0.01
133 175 0.99
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (133 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTGGTAACTTAAATCTGCTCCATTGCCACTACATGG
AGATAAGATTCGCCATCTTCGATCTGATCCACTACTACTTAGGGAGATAAGACATACAATTTTCA
GTA
Found at i:37897015 original size:177 final size:177
Alignment explanation
Indices: 37896832--37897194 Score: 516
Period size: 177 Copynumber: 2.1 Consensus size: 177
37896822 CCATCTTCGA
* **
37896832 TCTGATCCACTACT-AC-TTAGGGAGATAAGATCTACAATTTTCAGTATGCTCCACTGCAACTTC
1 TCTGATCCACT-CTAACTTTAGGGAGATAAGA-CTACAATCTTCAACATGCTCCACTGCAACTTC
* * *
37896895 AGGGAGATAAGGCTGGTAACTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGTC
64 AGGGAGATAAGGCTGGTAACTTAAATCTGCTCCATTACAGCTACATAGAGATAAGATTCGCCGTC
*
37896960 TTCGATCTGCTCTACTACTGCTTAGGGAGATAAGA-CATGCAATTTTCAG
129 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGCAATTTTCAG
* *** * *
37897009 TCTGATCCACTGTAACTTTAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTCAG
1 TCTGATCCACTCTAACTTTAGGGAGATAAGACTACAATCTTCAACATGCTCCACTGCAACTTCAG
** *
37897074 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACAGTTACATAGAGATAAGATTCGCCGTCTT
66 GGAGATAAGGCTGGTAACTTAAATCTGCTCCATTACAGCTACATAGAGATAAGATTCGCCGTCTT
*
37897139 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTTAG
131 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAG
*
37897186 TCTGCTCCA
1 TCTGATCCA
37897195 TTGCAACTCA
Statistics
Matches: 165, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
176 1 0.01
177 149 0.90
178 15 0.09
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (177 bp):
TCTGATCCACTCTAACTTTAGGGAGATAAGACTACAATCTTCAACATGCTCCACTGCAACTTCAG
GGAGATAAGGCTGGTAACTTAAATCTGCTCCATTACAGCTACATAGAGATAAGATTCGCCGTCTT
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAG
Found at i:37897195 original size:89 final size:88
Alignment explanation
Indices: 37896915--37897196 Score: 241
Period size: 89 Copynumber: 3.2 Consensus size: 88
37896905 GGCTGGTAAC
* * * * *
37896915 TTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCGCCGTCTTCGATCTGCTCTACTACTG
1 TTAAGTCTGCTCCATTACAGTTACATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTG
37896980 CTTAGGGAGATAAGACATGCAATT
66 CTTAGGGAGATAAGAC-TGCAATT
* * * * * ** *
37897004 TTCAGTCTGATCCACTGTA-ACTT-TAGGGAGATAAGACTT-G-TATCTT-GAACCTGCTCCACT
1 TTAAGTCTGCTCCA-T-TACAGTTACATGGAGATAAGA-TTCGCCGTCTTCG-ATCTGCTCCACT
* ** * *****
37897064 GCAACTTCAGGGAGATAAGGCTGGTGGC
62 ACTGCTT-AGGGAGATAAGACTGCAATT
* *
37897092 TTAAATCTGCTCCATTACAGTTACATAGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTG
1 TTAAGTCTGCTCCATTACAGTTACATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTG
37897157 CTTAGGGAGATAAGATCTGCAATT
66 CTTAGGGAGATAAGA-CTGCAATT
*
37897181 TTTAGTCTGCTCCATT
1 TTAAGTCTGCTCCATT
37897197 GCAACTCAGG
Statistics
Matches: 139, Mismatches: 43, Indels: 22
0.68 0.21 0.11
Matches are distributed among these distances:
86 2 0.01
87 7 0.05
88 53 0.38
89 71 0.51
90 5 0.04
91 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (88 bp):
TTAAGTCTGCTCCATTACAGTTACATGGAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTG
CTTAGGGAGATAAGACTGCAATT
Found at i:37897280 original size:177 final size:177
Alignment explanation
Indices: 37896878--37897234 Score: 403
Period size: 177 Copynumber: 2.0 Consensus size: 177
37896868 ATTTTCAGTA
* * * * ** ** * * *
37896878 TGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTAACTTAAATCTGCTCCATTGCCGCTACATGG
1 TGCTCCACTACAACCTCAGGAAGATAAGACTACTGGCTTAAATCTGCTCCATTACAGCTACATAG
*
37896943 AGATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGACATGCAATTTTCA
66 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACATGCAATTTTCA
* * * * * *
37897008 GTCTGATCCACTGTAACTTTAGGGAGATAAGACTTGTATCTTGAACC
131 GTCTGATCCACTGCAACTTCAGGGAGATAAGACTAGTAGCCTAAACC
* * * * ** *
37897055 TGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACAGTTACATAG
1 TGCTCCACTACAACCTCAGGAAGATAAGACTACTGGCTTAAATCTGCTCCATTACAGCTACATAG
*
37897120 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGCAATTTTT
66 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA-CATGCAATTTTC
* * * * * *
37897184 AGTCTGCTCCATTGCAAC-TCAGGGAGATGAGGCTAGTGGCCTAAATC
130 AGTCTGATCCACTGCAACTTCAGGGAGATAAGACTAGTAGCCTAAACC
37897231 TGCT
1 TGCT
37897235 TCTTTACTAC
Statistics
Matches: 159, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
176 24 0.15
177 134 0.84
178 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (177 bp):
TGCTCCACTACAACCTCAGGAAGATAAGACTACTGGCTTAAATCTGCTCCATTACAGCTACATAG
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACATGCAATTTTCA
GTCTGATCCACTGCAACTTCAGGGAGATAAGACTAGTAGCCTAAACC
Found at i:37897587 original size:44 final size:44
Alignment explanation
Indices: 37897274--37897740 Score: 143
Period size: 44 Copynumber: 10.7 Consensus size: 44
37897264 CTGTCTTTGA
* * *
37897274 TCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCATCAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG
* * * **** * *
37897318 CCTGCTCCACTACTGCTCAGGGAGATAAG-GCTAGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG
* * * * * * *
37897361 TCTACTTCC-CTACTACCTCGAGAAGATAAGAT-TCGCCATCTTC-G
1 TCTGC-TCCACTACTGCTTAG-GGAGATAAGATCT-ACAATCTTCAG
* **
37897405 ATCTGCTCCACTACTGCTTAGGGAAATAAGATCGGCAAT-TATCAG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT-TCAG
* * * * * **** * *
37897450 CCTGCT-CACTGCTGCTCAGAGAGATAAG-GCTAGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG
* * * * * * **
37897492 TCTGCTTCC-CTACTACCTCGGGAAAATGAGAT-TCGCCGTCTTC-G
1 TCTGC-TCCACTACTGCTTAGGG-AGATAAGATCT-ACAATCTTCAG
37897536 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG
** * * **** * *
37897581 TCTGCT-CACGGCTGCTTAGAGAGATAAG-GCTAGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG
* * * * * * **
37897623 TCTGCTTCTCTGCTACCTCGGGAAGATAAGAT-TCACCGTCTTC-G
1 TCTGCTCCACTACTGCTTAGGG-AGATAAGATCT-ACAATCTTCAG
* * * **
37897667 ATTTGTTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCAG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG
*
37897712 TCTGCTCCACTGCTGCTTAGGGAGATAAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAG
37897741 GCTAGTGGCT
Statistics
Matches: 285, Mismatches: 112, Indels: 52
0.63 0.25 0.12
Matches are distributed among these distances:
42 20 0.07
43 71 0.25
44 137 0.48
45 57 0.20
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG
Found at i:37897726 original size:263 final size:261
Alignment explanation
Indices: 37897120--37897970 Score: 1202
Period size: 263 Copynumber: 3.2 Consensus size: 261
37897110 AGTTACATAG
*
37897120 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTTA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA-TTTCA
* ** * * ** *
37897185 GTCTGCTCCATTGCAACTCAGGGAGATGAGGCTAGTGGCCTAAATCTGCTTCTTTACTACCTCGA
65 GTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
* * * * * *
37897250 GAAGATAAGATTCACTGTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCAT
130 GAAAATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * *
37897315 CAGCCTGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTC
195 CAGCCTGCT-CACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTT-CCTACTACCTC
*
37897380 GAGA
258 GGGA
* * *
37897384 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCGGCAATTATCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT-TCA
* *
37897449 GCCTGCT-CACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
65 GTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
* *
37897513 GAAAATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
130 GAAAATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * * *
37897578 CAGTCTGCTCACGGCTGCTTAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCTCTGCTACCTCG
195 CAGCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTC-CTACTACCTCG
37897643 GGA
259 GGA
* * * * *
37897646 AGATAAGATTCACCGTCTTCGATTTGTTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT-TTCA
*
37897711 GTCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC-G
65 GTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
* * * *
37897775 AAAAGATAAAATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATTT
130 GAAA-ATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
* *
37897840 TCAGCCTGCACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACCACCTC
194 TCAGCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCC-TACTACCTC
37897905 GGGA
258 GGGA
* * * *
37897909 AGATGAGATTCGCCTTTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
37897971 TCTCCAGTGT
Statistics
Matches: 519, Mismatches: 62, Indels: 14
0.87 0.10 0.02
Matches are distributed among these distances:
261 1 0.00
262 118 0.23
263 336 0.65
264 64 0.12
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (261 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTCAG
TCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGG
AAAATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
AGCCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTACTACCTCGGG
A
Found at i:37897810 original size:394 final size:395
Alignment explanation
Indices: 37897125--37897968 Score: 1303
Period size: 394 Copynumber: 2.1 Consensus size: 395
37897115 CATAGAGATA
* *
37897125 AGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTTAGTCTG
1 AGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCTG
** * * *
37897190 CTCCATTGCAACTCAGGGAGATGAGGCTAGTGGCCTAAATCTGCTTCTTTACTACCTCGAGAAGA
66 CTCCACGGCAACTCAGAGAGATAAGGCTAGTGGCCTAAATCTGCTTCTCTACTACCTCGAGAAGA
* * *
37897255 TAAGATTCACTGTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCC
131 TAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCC
*
37897320 TGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAGAA
196 TGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAAA
* * * *
37897385 GATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCGGCAATTATCAG
261 GATAAAATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAAATAAGATCGACAATTATCAG
* *
37897450 CCTGCTCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGA
326 CCTGCACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACCACCTCGGGA
37897515 AAATG
391 AAATG
*
37897520 AGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGTCTG
1 AGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCTG
** * * * *
37897585 CT-CACGGCTGCTTAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCTCTGCTACCTCGGGAAGA
66 CTCCACGGCAACTCAGAGAGATAAGGCTAGTGGCCTAAATCTGCTTCTCTACTACCTCGAGAAGA
* * * * * *
37897649 TAAGATTCACCGTCTTCGATTTGTTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTC
131 TAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCC
* * *
37897714 TGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAAA
196 TGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAAA
* * * *
37897779 GATAAAATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAG
261 GATAAAATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAAATAAGATCGACAATTATCAG
*
37897844 CCTGCACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACCACCTCGGGA
326 CCTGCACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACCACCTCGGGA
*
37897909 AGATG
391 AAATG
* * *
37897914 AGATTCGCCTTTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAAT
1 AGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT
37897969 TTTCTCCAGT
Statistics
Matches: 406, Mismatches: 43, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
394 342 0.84
395 64 0.16
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (395 bp):
AGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCTG
CTCCACGGCAACTCAGAGAGATAAGGCTAGTGGCCTAAATCTGCTTCTCTACTACCTCGAGAAGA
TAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCATCAGCC
TGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAAA
GATAAAATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAAATAAGATCGACAATTATCAG
CCTGCACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACCACCTCGGGA
AAATG
Found at i:37897971 original size:131 final size:132
Alignment explanation
Indices: 37897053--37897972 Score: 1188
Period size: 131 Copynumber: 7.0 Consensus size: 132
37897043 GTATCTTGAA
** * * * *
37897053 CCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGC-TCCATTACAGTTACA
1 CCTGCTCCACTGCTGC-TCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCC-CTAC---TACC
37897117 T--AG-AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA
61 TCGAGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAA
*
37897179 TTTTTAG
126 TTTTCAG
* * ** * * * **
37897186 TCTGCTCCATTGCAACTCAGGGAGATGAGGCTAGTGGCCTAAATCTGCTTCTTTACTACCTCGAG
1 CCTGCTCCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAG
* * * * **
37897251 AAGATAAGATTCACTGTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCATC
66 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTC
37897316 AG
131 AG
* * *
37897318 CCTGCTCCACTACTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAG
1 CCTGCTCCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAG
* * * *
37897383 AAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCGGCAATTATC
66 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTC
37897448 AG
131 AG
*
37897450 CCTGCT-CACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGG
1 CCTGCTCCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAG
* * * *
37897514 AAAATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
66 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTC
37897579 AG
131 AG
* * * * * *
37897581 TCTGCT-CACGGCTGCTTAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCTCTGCTACCTCGGG
1 CCTGCTCCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAG
* * * * * *
37897645 AAGATAAGATTCACCGTCTTCGATTTGTTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTC
66 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTC
37897710 AG
131 AG
* * * *
37897712 TCTGCTCCACTGCTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAA
1 CCTGCTCCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAG
* * * *
37897777 AAGATAAAATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTC
66 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTC
37897842 AG
131 AG
* * * *
37897844 CCTGC-ACACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACCACCTCGGG
1 CCTGCTCCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAG
* * * *
37897908 AAGATGAGATTCGCCTTTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTC
66 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTC
37897973 TCCAGTGTTG
Statistics
Matches: 697, Mismatches: 85, Indels: 12
0.88 0.11 0.02
Matches are distributed among these distances:
129 4 0.01
131 350 0.50
132 327 0.47
133 16 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (132 bp):
CCTGCTCCACTGCTGCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAG
AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTC
AG
Found at i:37898575 original size:25 final size:25
Alignment explanation
Indices: 37898538--37898597 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
37898528 TTAAGTTGGG
37898538 TAAGTT-CTAAACAATAGTCCTGTTT
1 TAAGTTCCT-AACAATAGTCCTGTTT
*
37898563 TAAGTTCCTAACAATAGTCTTGTTT
1 TAAGTTCCTAACAATAGTCCTGTTT
*
37898588 CAAGTTCCTA
1 TAAGTTCCTA
37898598 TACTGTTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (25 bp):
TAAGTTCCTAACAATAGTCCTGTTT
Found at i:37899617 original size:7 final size:7
Alignment explanation
Indices: 37899605--37899642 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
37899595 CATGATTTTT
37899605 TTTTTAC
1 TTTTTAC
37899612 TTTTTAC
1 TTTTTAC
37899619 TTTTTAC
1 TTTTTAC
37899626 -TTTTA-
1 TTTTTAC
*
37899631 TTTTTTC
1 TTTTTAC
37899638 TTTTT
1 TTTTT
37899643 GGCTGCCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 9 0.32
7 19 0.68
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTAC
Found at i:37899624 original size:14 final size:13
Alignment explanation
Indices: 37899600--37899642 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
37899590 CCTTCCATGA
37899600 TTTTT-TTTTTAC
1 TTTTTATTTTTAC
37899612 TTTTTACTTTTTAC
1 TTTTTA-TTTTTAC
*
37899626 -TTTTATTTTTTC
1 TTTTTATTTTTAC
37899638 TTTTT
1 TTTTT
37899643 GGCTGCCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 11 0.41
13 9 0.33
14 7 0.26
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTTAC
Found at i:37903621 original size:50 final size:50
Alignment explanation
Indices: 37903546--37903715 Score: 192
Period size: 50 Copynumber: 3.5 Consensus size: 50
37903536 CCATGGCAAC
* *
37903546 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGG
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
37903596 AAGTGATAAGTAATAGCTTGGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
37903646 AAGTG---A-T-A-A-CTTTGGCTACATTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* ** *
37903689 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTAATAGCTTCGGCTAC
37903716 CTGATCAGTG
Statistics
Matches: 102, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
43 31 0.30
44 6 0.06
45 1 0.01
46 1 0.01
47 2 0.02
48 1 0.01
50 52 0.51
51 8 0.08
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:37903729 original size:31 final size:31
Alignment explanation
Indices: 37903691--37903808 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
37903681 ACAAATGACA
* *
37903691 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
37903722 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
37903753 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
37903784 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
37903809 AAGTGACAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:37903944 original size:93 final size:90
Alignment explanation
Indices: 37903824--37904036 Score: 225
Period size: 95 Copynumber: 2.3 Consensus size: 90
37903814 ACAAGTGATT
* ** * * *
37903824 TTCGTATAAGACCATATATGGGATATGGCATCG-GTGTGATATATG-CTACTGTATAAGACTATA
1 TTCGTGTAAGACCATAGCTGGGCTATGGCATCGAATGTGATATATGACTAC-GTATAAGACCATA
* *
37903887 TCTGGGATATGGCATCAGTGAGATATGTGA
65 GCTGGGATATGGCATC---GAGATATG-AA
* * *
37903917 TTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATA
1 TTCGTGTAAGACCATAGCTGGGCTATGGCATCGA-ATGTGATATATGACTACGTATAAGACCATA
* *
37903982 GCTGGGCTATGGCATCGATATATGAA
65 GCTGGGATATGGCATCGAGATATGAA
37904008 TAT-GTGTAAGACCATAGCTGGGCTATGGC
1 T-TCGTGTAAGACCATAGCTGGGCTATGGC
37904037 GTCATTATGT
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
91 28 0.27
92 8 0.08
93 29 0.28
95 35 0.34
96 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (90 bp):
TTCGTGTAAGACCATAGCTGGGCTATGGCATCGAATGTGATATATGACTACGTATAAGACCATAG
CTGGGATATGGCATCGAGATATGAA
Found at i:37903981 original size:49 final size:47
Alignment explanation
Indices: 37903824--37904036 Score: 199
Period size: 47 Copynumber: 4.6 Consensus size: 47
37903814 ACAAGTGATT
* ** * * * *
37903824 TTCGTATAAGACCATATATGGGATATGGCATCG-GTGTGATATATGC
1 TTCGTGTAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGA
* * * * * * *
37903870 TACTGTATAAGACTATATCTGGGATATGGCATC-AGTGAGATATGTGA
1 TTC-GTGTAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGA
37903917 TTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGA
1 TTCGTGTAAGACCATAGCTGGGCTATGGCATCGA-ATGTGATATGTGA
*
37903965 TTACGTGTAAGACCATAGCTGGGCTATGGCATCG-A--T-ATATG-AA
1 TT-CGTGTAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGA
37904008 TAT-GTGTAAGACCATAGCTGGGCTATGGC
1 T-TCGTGTAAGACCATAGCTGGGCTATGGC
37904037 GTCATTATGT
Statistics
Matches: 147, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
42 26 0.18
43 2 0.01
44 6 0.04
45 1 0.01
46 27 0.18
47 41 0.28
48 13 0.09
49 31 0.21
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (47 bp):
TTCGTGTAAGACCATAGCTGGGCTATGGCATCGAATGTGATATGTGA
Found at i:37904015 original size:42 final size:43
Alignment explanation
Indices: 37903920--37904083 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 43
37903910 TATGTGATTC
*
37903920 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
37903967 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
37904011 GTGTAAGACCATAGCTGGGCTATGGCGTC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
37904053 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
37904084 GAAAACGAAG
Statistics
Matches: 103, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 62 0.60
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 30 0.29
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:37905721 original size:12 final size:12
Alignment explanation
Indices: 37905701--37905738 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
37905691 TCTTAGCCAG
37905701 TTGTTCTTGCAT
1 TTGTTCTTGCAT
*
37905713 TTGTGCTTGCAT
1 TTGTTCTTGCAT
*
37905725 CTGTTCTTGCAT
1 TTGTTCTTGCAT
37905737 TT
1 TT
37905739 CCTTTTGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.08, C:0.18, G:0.18, T:0.55
Consensus pattern (12 bp):
TTGTTCTTGCAT
Found at i:37908184 original size:3 final size:3
Alignment explanation
Indices: 37908169--37908464 Score: 99
Period size: 3 Copynumber: 99.7 Consensus size: 3
37908159 ATGTTATGTA
* * * *
37908169 AAT AAT GAT AAT AAT AA- AAT AA- AA- AAT AGT AAT AAT AGT -AT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
37908213 TAT AAT AAT AGGA- AAC AAT AAT GAT AA- AAG AA- AAT AAT AGT AAT
1 AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
37908257 AAT GGAAGT AAT AA- AAT AAT AAT AAT AGA- AAC AAT AGT AAT AA- AAGT
1 AAT --AA-T AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T
* *
37908304 AAT AAT AA- AAT AGA- AAT AAC AAT GAT ACATT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT
* ** * * *
37908349 ACGT GCT AAT AAT AAT AAC AAT -AT AAA AAA AAT AA- AAT AA- AACT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * * *
37908393 -AT ATT AAT AAA AAT AAT AAT AAT AGGTT AAT AAT AAT AGT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT
37908439 AAGGT AA- AAT AAT AAT AA- AAT AAT AA
1 AA--T AAT AAT AAT AAT AAT AAT AAT AA
37908465 AAACACTATT
Statistics
Matches: 218, Mismatches: 41, Indels: 68
0.67 0.13 0.21
Matches are distributed among these distances:
2 33 0.15
3 165 0.76
4 10 0.05
5 9 0.04
6 1 0.00
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:37908281 original size:11 final size:11
Alignment explanation
Indices: 37908266--37908464 Score: 58
Period size: 11 Copynumber: 17.7 Consensus size: 11
37908256 TAATGGAAGT
37908266 AATAA-AATAA
1 AATAATAATAA
37908276 TAATAATAGA-AA
1 -AATAATA-ATAA
*
37908288 CAATAGTAATAA
1 -AATAATAATAA
37908300 AAGTAATAATAA
1 AA-TAATAATAA
37908312 AATAGA-AATAA
1 AATA-ATAATAA
* *
37908323 CAATGATACAT-T
1 -AATAATA-ATAA
37908335 AATAATAATAA
1 AATAATAATAA
* * **
37908346 TATACGTGCTAA
1 AATA-ATAATAA
*
37908358 TAATAATAACAA
1 -AATAATAATAA
*
37908370 TATAA-AA-AA
1 AATAATAATAA
37908379 AATAA-AATAA
1 AATAATAATAA
37908389 AACTATATTAATAAA
1 AA-TA-A-TAAT-AA
37908404 AATAATAATAA
1 AATAATAATAA
* ***
37908415 TAGGTTAATAA
1 AATAATAATAA
*
37908426 TAATAGTAAT-A
1 -AATAATAATAA
**
37908437 AA-AA-GGTAA
1 AATAATAATAA
37908446 AATAATAATAA
1 AATAATAATAA
37908457 AATAATAA
1 AATAATAA
37908465 AAACACTATT
Statistics
Matches: 136, Mismatches: 31, Indels: 42
0.65 0.15 0.20
Matches are distributed among these distances:
8 1 0.01
9 12 0.09
10 12 0.09
11 52 0.38
12 43 0.32
13 7 0.05
14 5 0.04
15 4 0.03
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.27
Consensus pattern (11 bp):
AATAATAATAA
Found at i:37908292 original size:23 final size:23
Alignment explanation
Indices: 37908248--37908292 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
37908238 AAAAGAAAAT
* * **
37908248 AATAGTAATAATGGAAGTAATAA
1 AATAATAATAATAGAAACAATAA
37908271 AATAATAATAATAGAAACAATA
1 AATAATAATAATAGAAACAATA
37908293 GTAATAAAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.24
Consensus pattern (23 bp):
AATAATAATAATAGAAACAATAA
Done.